NCBI Conserved Domain Search

PHD finger 5 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

1242-1284

4.15e-26

PHD finger 5 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed histone-lysine N-methyltransferase NSD2, or multiple myeloma SET domain-containing protein (MMSET), or protein trithorax-5 Wolf-Hirschhorn syndrome candidate 1 protein (WHSC1), is overexpressed frequently in the t(4;14) translocation in 15% to 20% of multiple myeloma. It plays important roles in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. It also enhances androgen receptor (AR)-mediated transcription. The principal chromatin-regulatory activity of NSD2 is dimethylation of histone H3 at lysine 36 (H3K36me2). NSD2 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, a high mobility group (HMG) box, five PHD (plant-homeodomain) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD fingers mediate chromatin interaction and recognition of histone marks. This model corresponds to the fifth PHD finger.

Pssm-ID: 277130 Cd Length: 43 Bit Score: 101.55 E-value: 4.15e-26

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1242 ECFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15660     1 ECFRCGDGGQLVLCDRKSCTKAYHLSCLGLTKRPFGKWECPWH 43

HMG-box_NSD2

cd21991

high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and ...

452-507

3.46e-23

high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; NSD2, also called multiple myeloma SET domain-containing protein (MMSET), protein trithorax-5 (TRX5), or wolf-Hirschhorn syndrome candidate 1 protein (WHSC1), acts as a histone-lysine N-methyltransferase with histone H3 'Lys-36' (H3K36me) methyltransferase activity. NSD2 has been shown to mediate di- and trimethylation of H3K36 and dimethylation of H4K20 in different systems and has been characterized as a transcriptional repressor interacting with histone deacetylase HDAC1 and histone demethylase LSD1. NSD2 mediates constitutive NF-kappaB signaling for cancer cell proliferation, survival and tumor growth. It is highly overexpressed in several types of human cancers, including small-cell lung cancers, neuroblastoma, carcinomas of stomach and colon, and bladder cancers, and its overexpression tends to be associated with tumor aggressiveness.

Pssm-ID: 438807 [Multi-domain] Cd Length: 62 Bit Score: 93.92 E-value: 3.46e-23

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  452 RKGDSAAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:cd21991     1 KKKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARYKSKFA 56

PHD2_NSD2

cd15651

PHD finger 2 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

717-763

5.27e-22

PHD finger 2 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed histone-lysine N-methyltransferase NSD2, or multiple myeloma SET domain-containing protein (MMSET), or protein trithorax-5 Wolf-Hirschhorn syndrome candidate 1 protein (WHSC1), is overexpressed frequently in the t(4;14) translocation in 15% to 20% of multiple myeloma. It plays important roles in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. It also enhances androgen receptor (AR)-mediated transcription. The principal chromatin-regulatory activity of NSD2 is dimethylation of histone H3 at lysine 36 (H3K36me2). NSD2 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, a high mobility group (HMG) box, five PHD (plant homeodomain) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD fingers mediate chromatin interaction and recognition of histone marks. This model corresponds to the second PHD finger.

Pssm-ID: 277121 Cd Length: 47 Bit Score: 90.29 E-value: 5.27e-22

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  717 SCFVCKESKMEVKRCVVNQCGKFYHEACVKKYPLTVFESRGFRCPLH 763
Cdd:cd15651     1 SCFVCKESKGDVKRCVVLHCGKFYHEACVRKYPLTVFENRGFRCPLH 47

PHD_SF super family

cl22851

PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) ...

834-874

1.12e-21

PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) finger typically characterized as Cys4HisCys3, and a non-canonical extended PHD finger, characterized as Cys2HisCys5HisCys2His. Variations include the RAG2 PHD finger characterized by Cys3His2Cys2His and the PHD finger 5 found in nuclear receptor-binding SET domain-containing proteins characterized by Cys4HisCys2His. The PHD finger is also termed LAP (leukemia-associated protein) motif or TTC (trithorax consensus) domain. Single or multiple copies of PHD fingers have been found in a variety of eukaryotic proteins involved in the control of gene transcription and chromatin dynamics. PHD fingers can recognize the unmodified and modified histone H3 tail, and some have been found to interact with non-histone proteins. They also function as epigenome readers controlling gene expression through molecular recruitment of multi-protein complexes of chromatin regulators and transcription factors. The PHD finger domain SF is structurally similar to the RING and FYVE_like superfamilies.

The actual alignment was detected with superfamily member cd15657:

Pssm-ID: 473978 Cd Length: 41 Bit Score: 88.91 E-value: 1.12e-21

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMPDGSWFCNDCR 874
Cdd:cd15657     1 WCFVCSKGGSLLCCESCPAAFHPDCLNIEMPDGSWFCNDCR 41

PHD1_NSD1_2

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; ...

670-712

1.17e-19

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; NSD1, also termed H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, or androgen receptor coactivator 267 kDa protein, or androgen receptor-associated protein of 267 kDa, or H3-K36-HMTase H4-K20-HMTase, or Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD2, also termed histone-lysine N-methyltransferase NSD2, or multiple myeloma SET domain-containing protein (MMSET), or protein trithorax-5 Wolf-Hirschhorn syndrome candidate 1 protein (WHSC1), is overexpressed frequently in the t(4;14) translocation in 15% to 20% of multiple myeloma. It plays important roles in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. It also enhances androgen receptor (AR)-mediated transcription. The principal chromatin-regulatory activity of NSD2 is dimethylation of histone H3 at lysine 36 (H3K36me2). Both NSD1 and NSD2 contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). In addition, NSD2 harbors a high mobility group (HMG) box. The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD fingers mediate chromatin interaction and recognition of histone marks. This model corresponds to the first PHD finger.

Pssm-ID: 277118 Cd Length: 43 Bit Score: 83.29 E-value: 1.17e-19

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  670 VCQLCEKTGSLLLCEGPCCGAFHLACLGLSRRPEGRFTCTECA 712
Cdd:cd15648     1 VCQVCEKPGELLLCEGQCCGAFHLDCIGLSEMPSGKFICDECI 43

C5HCH super family

cl39412

NSD Cys-His rich domain; This is an NSD-specific Cys-His rich region (C5HCH) domain. Family ...

1283-1328

6.25e-15

NSD Cys-His rich domain; This is an NSD-specific Cys-His rich region (C5HCH) domain. Family members include NSD3 (nuclear receptor SET domain-containing) proteins. This domain is located on the C-terminal of NSD1, 2 and 3 proteins. C5HCH domain lies adjacent to the fifth plant homeodomain (PHD5). The PHD5-C5HCH module of NSD3 (PHD5-C5HCHNSD3) recognizes the H3 N-terminal peptide containing unmodified K4 and trimethylated K9. Moreover, it has been reported that the PHD5-C5HCH module of NSD1 (PHD5-C5HCH) was the sole region required for tight binding of the NUP98-NSD1 fusion protein to the HoxA9 gene promoter, implicating that PHD5-C5HCH might have chromatin targeting ability.

The actual alignment was detected with superfamily member pfam17982:

Pssm-ID: 465605 Cd Length: 50 Bit Score: 70.19 E-value: 6.25e-15

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 568933611  1283 WHHCDVCGKPSTSFCHLCPNSFCKEHQDGTAFRSTQDGQSYCCEHD 1328
Cdd:pfam17982    1 WHQCSVCGSPATSFCEFCPSSFCKDHEKGALVPSALEGRLCCSEHD 46

AWS

smart00570

associated with SET domains; subdomain of PRESET

1013-1063

1.58e-13

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 66.27 E-value: 1.58e-13

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 568933611   1013 EIPKCNCKPT--DENPCGSDseCLNRMLMFEChPQVCPAGEYCQNQCFTKRQY 1063
Cdd:smart00570    1 DIMTCECKPTddDETACGSD--CLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

TNG2 super family

cl34876

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

546-711

8.68e-08

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

The actual alignment was detected with superfamily member COG5034:

Pssm-ID: 227367 [Multi-domain] Cd Length: 271 Bit Score: 55.33 E-value: 8.68e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  546 RKRLRADKHSLRKQRETITDKTARTSSYKAIEAASSLKSQA---ATKNLSDACKplKKRNRASATASSALGFNKSSSPSA 622
Cdd:COG5034    98 RHRKLLDDRIAKRPHEKVAARIENCHDAVSRLERNSYSSAArrsSGEHRSAASS--QGSRHTKLKKRKNIHNLKRRSPEL 175

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  623 SLTEHeVSDSPGDEPSESpyESADETQTEASVSSKK---SERGMAAKKEYVCqLCEKT--GSLLLCEGPCCGA--FHLAC 695
Cdd:COG5034   176 SSKRE-VSFTLESPSVPD--TATRVKEGNNGGSTKSrgvSSEDNSEGEELYC-FCQQVsyGQMVACDNANCKRewFHLEC 251

                         170
                  ....*....|....*.
gi 568933611  696 LGLSRRPEGRFTCTEC 711
Cdd:COG5034   252 VGLKEPPKGKWYCPEC 267

Name

Accession

Description

Interval

E-value

SET_NSD2

cd19211

SET domain (including post-SET domain) found in nuclear SET domain-containing protein 2 (NSD2) ...

1063-1204

5.20e-103

Pssm-ID: 380988 [Multi-domain] Cd Length: 142 Bit Score: 323.10 E-value: 5.20e-103

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19211     1 YPETKIIKTEGKGWGLIAKRDIKKGEFVNEYVGELIDEEECMARIKHAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19211    81 HSCQPNCETQKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGAPNCSGFLG 142

PWWP_NSD2_rpt1

cd20162

first PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; ...

220-347

3.32e-87

Pssm-ID: 438990 Cd Length: 128 Bit Score: 278.72 E-value: 3.32e-87

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKLCQESAK 299
Cdd:cd20162     1 YNVGDLVWSKVSGYPWWPCMVSADPLLHSHTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVPFEGEGQFEQLCQESAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611  300 QAPTKAEKIKLLKPISGRLRAQWEMGIVQAEEAASMSIEERKAKFTFL 347
Cdd:cd20162    81 QAPTKAEKIKLLKPISGKLRAQWDMGIVQAEEAASMTVEERKAKFTFL 128

PWWP_NSD2_rpt2

cd20165

second PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar ...

880-975

1.06e-70

Pssm-ID: 438993 Cd Length: 96 Bit Score: 231.00 E-value: 1.06e-70

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  880 HFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRGIGRVF 959
Cdd:cd20165     1 RFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSKYQGGKGIGKVF 80

                          90
                  ....*....|....*.
gi 568933611  960 KNALQEAEARFNEVKL 975
Cdd:cd20165    81 KNALQEAEARFREIKL 96

SET

smart00317

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Putative methyl transferase, based on ...

1064-1187

4.83e-45

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Putative methyl transferase, based on outlier plant homologues

Pssm-ID: 214614 [Multi-domain] Cd Length: 124 Bit Score: 158.65 E-value: 4.83e-45

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   1064 PETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNH 1143
Cdd:smart00317    1 NKLEVFKSPGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERPKAYDTDGAKAFYLFDIDSDLCIDARRKGNLARFINH 80

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....
gi 568933611   1144 SCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGN 1187
Cdd:smart00317   81 SCEPNCELLFVEVNGDDRIVIFALRDIKPGEELTIDYGSDYANE 124

SET

COG2940

SET domain-containing protein (function unknown) [General function prediction only];

1064-1201

1.13e-35

SET domain-containing protein (function unknown) [General function prediction only];

Pssm-ID: 442183 [Multi-domain] Cd Length: 134 Bit Score: 132.39 E-value: 1.13e-35

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1064 PETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNH 1143
Cdd:COG2940     6 PRIEVRPSPIHGRGVFATRDIPKGTLIGEYPGEVITWAEAERR---EPHKEPLHTYLFELDDDGVIDGALGGNPARFINH 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568933611 1144 SCQPNCEtlkwTVNGDTRVGLFAVCDIPAGTELTFNYNLDClGNEKTVCRCGasNCSG 1201
Cdd:COG2940    83 SCDPNCE----ADEEDGRIFIVALRDIAAGEELTYDYGLDY-DEEEYPCRCP--NCRG 133

SET

pfam00856

SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be ...

1075-1181

2.89e-32

SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains have been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as SET-N and SET-C. SET-C forms an unusual and conserved knot-like structure of probably functional importance. Additionally to SET-N and SET-C, an insert region (SET-I) and flanking regions of high structural variability form part of the overall structure.

Pssm-ID: 459965 [Multi-domain] Cd Length: 115 Bit Score: 121.86 E-value: 2.89e-32

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  1075 GWGLVAKRDIRKGEFVNEYVGE-LIDEEECMAR---IKYAHENDITHFYMLTIDKD--RIID--AGPKGNYSRFMNHSCQ 1146
Cdd:pfam00856    1 GRGLFATEDIPKGEFIGEYVEVlLITKEEADKRellYYDKLELRLWGPYLFTLDEDseYCIDarALYYGNWARFINHSCD 80

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 568933611  1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:pfam00856   81 PNCEVRVVYVNGGPRIVIFALRDIKPGEELTIDYG 115

PHD3_NSD2

cd15654

PHD finger 3 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

764-817

2.42e-29

Pssm-ID: 277124 Cd Length: 54 Bit Score: 111.09 E-value: 2.42e-29

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  764 SCMSCHASNPSNPRPSKGKMMRCVRCPVAYHGGDACLAAGCSVIASNSIICTGH 817
Cdd:cd15654     1 SCVSCHASNPSNPRATKGKMMRCVRCPVAYHGGDLCIAAGCAVLTSNSIICTNH 54

PWWP

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...

883-971

2.35e-27

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain binds to Histone-4 methylated at lysine-20, H4K20me, suggesting that it is methyl-lysine recognition motif. Removal of two conserved aromatic residues in a hydrophobic cavity created by this domain within the full-length protein, Pdp1, abolishes the interaction o f the protein with H4K20me3. In fission yeast, Set9 is the sole enzyme that catalyzes all three states of H4K20me, and Set9-mediated H4K20me is required for efficient recruitment of checkpoint protein Crb2 to sites of DNA damage. The methylation of H4K20 is involved in a diverse array of cellular processes, such as organizing higher-order chromatin, maintaining genome stability, and regulating cell-cycle progression.

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 106.74 E-value: 2.35e-27

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   883 DIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRG--IGRVFK 960
Cdd:pfam00855    2 DLVWAKLKGYPWWPARVVDPEELPENVLKPKKKDGEYLVRFFGDSEFAWVKPKDLKPFDEGDEFEYLKKKKKkkKKKAFK 81

                           90
                   ....*....|.
gi 568933611   961 NALQEAEARFN 971
Cdd:pfam00855   82 KALEEAEEALK 92

PHD5_NSD2

PHD finger 5 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

1242-1284

4.15e-26

Pssm-ID: 277130 Cd Length: 43 Bit Score: 101.55 E-value: 4.15e-26

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1242 ECFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15660     1 ECFRCGDGGQLVLCDRKSCTKAYHLSCLGLTKRPFGKWECPWH 43

HMG-box_NSD2

cd21991

high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and ...

452-507

3.46e-23

Pssm-ID: 438807 [Multi-domain] Cd Length: 62 Bit Score: 93.92 E-value: 3.46e-23

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  452 RKGDSAAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:cd21991     1 KKKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARYKSKFA 56

PWWP

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

879-941

7.88e-23

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 92.79 E-value: 7.88e-23

                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568933611    879 LHFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYM 941
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKMTPDNIMKRKSDENLYPVLFFGDKDTAWIPSSKLFPLT 63

PHD2_NSD2

cd15651

PHD finger 2 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

717-763

5.27e-22

Pssm-ID: 277121 Cd Length: 47 Bit Score: 90.29 E-value: 5.27e-22

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  717 SCFVCKESKMEVKRCVVNQCGKFYHEACVKKYPLTVFESRGFRCPLH 763
Cdd:cd15651     1 SCFVCKESKGDVKRCVVLHCGKFYHEACVRKYPLTVFENRGFRCPLH 47

PHD4_NSD2

cd15657

PHD finger 4 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

834-874

1.12e-21

PHD finger 4 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed histone-lysine N-methyltransferase NSD2, or multiple myeloma SET domain-containing protein (MMSET), or protein trithorax-5 Wolf-Hirschhorn syndrome candidate 1 protein (WHSC1), is overexpressed frequently in the t(4;14) translocation in 15% to 20% of multiple myeloma. It plays important roles in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. It also enhances androgen receptor (AR)-mediated transcription. The principal chromatin-regulatory activity of NSD2 is dimethylation of histone H3 at lysine 36 (H3K36me2). NSD2 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, a high mobility group (HMG) box, five PHD (plant-homeodomain) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD fingers mediate chromatin interaction and recognition of histone marks. This model corresponds to the fourth PHD finger.

Pssm-ID: 277127 Cd Length: 41 Bit Score: 88.91 E-value: 1.12e-21

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMPDGSWFCNDCR 874
Cdd:cd15657     1 WCFVCSKGGSLLCCESCPAAFHPDCLNIEMPDGSWFCNDCR 41

PWWP

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...

223-307

7.47e-21

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 88.25 E-value: 7.47e-21

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   223 GDLVWSKVSGYPWWPCMVSADPLLHNHTKLKgqKKSARQYHVQFFGDaPERAWIFEKSLVAFEGEEQFEKLCQESAKQAP 302
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVDPEELPENVLKP--KKKDGEYLVRFFGD-SEFAWVKPKDLKPFDEGDEFEYLKKKKKKKKK 77


                   ....*
gi 568933611   303 TKAEK 307
Cdd:pfam00855   78 KAFKK 82

PHD1_NSD1_2

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; ...

670-712

1.17e-19

Pssm-ID: 277118 Cd Length: 43 Bit Score: 83.29 E-value: 1.17e-19

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  670 VCQLCEKTGSLLLCEGPCCGAFHLACLGLSRRPEGRFTCTECA 712
Cdd:cd15648     1 VCQVCEKPGELLLCEGQCCGAFHLDCIGLSEMPSGKFICDECI 43

C5HCH

pfam17982

NSD Cys-His rich domain; This is an NSD-specific Cys-His rich region (C5HCH) domain. Family ...

1283-1328

6.25e-15

Pssm-ID: 465605 Cd Length: 50 Bit Score: 70.19 E-value: 6.25e-15

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 568933611  1283 WHHCDVCGKPSTSFCHLCPNSFCKEHQDGTAFRSTQDGQSYCCEHD 1328
Cdd:pfam17982    1 WHQCSVCGSPATSFCEFCPSSFCKDHEKGALVPSALEGRLCCSEHD 46

AWS

smart00570

associated with SET domains; subdomain of PRESET

1013-1063

1.58e-13

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 66.27 E-value: 1.58e-13

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 568933611   1013 EIPKCNCKPT--DENPCGSDseCLNRMLMFEChPQVCPAGEYCQNQCFTKRQY 1063
Cdd:smart00570    1 DIMTCECKPTddDETACGSD--CLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

PWWP

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

220-282

2.05e-12

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 63.52 E-value: 2.05e-12

                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568933611    220 YNVGDLVWSKVSGYPWWPCMVSADPLLhnHTKLKGQKKSARQYHVQFFGDaPERAWIFEKSLV 282
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKMT--PDNIMKRKSDENLYPVLFFGD-KDTAWIPSSKLF 60

AWS

pfam17907

AWS domain; This entry represents the AWS (associated with SET domain) domain. This is a zinc ...

1023-1061

2.71e-12

AWS domain; This entry represents the AWS (associated with SET domain) domain. This is a zinc binding domain. The full AWS domain contains 8 cysteines. This entry represents the N-terminal part of the domain, with the C-terminal part interwoven with the SET domain.

Pssm-ID: 465559 Cd Length: 39 Bit Score: 62.44 E-value: 2.71e-12

                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 568933611  1023 DENPCGSDSECLNRMLMFECHPQVCPAGEYCQNQCFTKR 1061
Cdd:pfam17907    1 DDPPCGCGSDCINRMLFVECTPKTCPCGESCQNQRFQRK 39

TNG2

COG5034

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

546-711

8.68e-08

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

Pssm-ID: 227367 [Multi-domain] Cd Length: 271 Bit Score: 55.33 E-value: 8.68e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  546 RKRLRADKHSLRKQRETITDKTARTSSYKAIEAASSLKSQA---ATKNLSDACKplKKRNRASATASSALGFNKSSSPSA 622
Cdd:COG5034    98 RHRKLLDDRIAKRPHEKVAARIENCHDAVSRLERNSYSSAArrsSGEHRSAASS--QGSRHTKLKKRKNIHNLKRRSPEL 175

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  623 SLTEHeVSDSPGDEPSESpyESADETQTEASVSSKK---SERGMAAKKEYVCqLCEKT--GSLLLCEGPCCGA--FHLAC 695
Cdd:COG5034   176 SSKRE-VSFTLESPSVPD--TATRVKEGNNGGSTKSrgvSSEDNSEGEELYC-FCQQVsyGQMVACDNANCKRewFHLEC 251

                         170
                  ....*....|....*.
gi 568933611  696 LGLSRRPEGRFTCTEC 711
Cdd:COG5034   252 VGLKEPPKGKWYCPEC 267

HMG

smart00398

high mobility group;

460-506

1.13e-07

high mobility group;

Pssm-ID: 197700 [Multi-domain] Cd Length: 70 Bit Score: 50.01 E-value: 1.13e-07

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 568933611    460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKF 506
Cdd:smart00398    9 FMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKA 55

HMG_box

pfam00505

HMG (high mobility group) box;

459-507

1.14e-07

HMG (high mobility group) box;

Pssm-ID: 459837 [Multi-domain] Cd Length: 68 Bit Score: 49.92 E-value: 1.14e-07

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 568933611   459 QFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:pfam00505    7 AFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAE 55

PHD

PHD-finger; PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar ...

834-874

2.88e-07

PHD-finger; PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains. Several PHD fingers have been identified as binding modules of methylated histone H3.

Pssm-ID: 425785 [Multi-domain] Cd Length: 51 Bit Score: 48.26 E-value: 2.88e-07

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 568933611   834 WCFVCSK---GGSLLCCEACPAAFHPDCLNI-----EMPDGSWFCNDCR 874
Cdd:pfam00628    1 YCAVCGKsddGGELVQCDGCDDWFHLACLGPpldpaEIPSGEWLCPECK 49

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

834-873

6.93e-07

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers.

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 47.21 E-value: 6.93e-07

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 568933611    834 WCFVCSK---GGSLLCCEACPAAFHPDCLNI----EMPDGSWFCNDC 873
Cdd:smart00249    1 YCSVCGKpddGGELLQCDGCDRWYHQTCLGPplleEEPDGKWYCPKC 47

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

669-711

4.15e-04

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 39.50 E-value: 4.15e-04

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*.
gi 568933611    669 YVCQLCEKTGSLLLCEGpCCGAFHLACLGL---SRRPEGRFTCTEC 711
Cdd:smart00249    3 SVCGKPDDGGELLQCDG-CDRWYHQTCLGPpllEEEPDGKWYCPKC 47

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

1243-1284

1.09e-03

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 38.35 E-value: 1.09e-03

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*
gi 568933611   1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLGL---GKRPFGKWECPWH 1284
Cdd:smart00249    5 CGKPDDGGELLQCDG--CDRWYHQTCLGPpllEEEPDGKWYCPKC 47

PHD

PHD-finger; PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar ...

1243-1289

7.12e-03

Pssm-ID: 425785 [Multi-domain] Cd Length: 51 Bit Score: 35.93 E-value: 7.12e-03

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 568933611  1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLGLGKR----PFGKWECPwhHCDVC 1289
Cdd:pfam00628    5 CGKSDDGGELVQCDG--CDDWFHLACLGPPLDpaeiPSGEWLCP--ECKPK 51

PTZ00199

high mobility group protein; Provisional

426-505

8.80e-03

high mobility group protein; Provisional

Pssm-ID: 185511 [Multi-domain] Cd Length: 94 Bit Score: 37.14 E-value: 8.80e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  426 MAEAEPKRGVGSPaGRKKSTGSAPRSrkgdSAAQFLVFCQKHRDEVVAEHPDASGE--EIEELLGSQWSMLNEKQKARYN 503
Cdd:PTZ00199    1 MAKKQGKVLVRKN-KRKKKDPNAPKR----ALSAYMFFAKEKRAEIIAENPELAKDvaAVGKMVGEAWNKLSEEEKAPYE 75


                  ..
gi 568933611  504 TK 505
Cdd:PTZ00199   76 KK 77

Name

Accession

Description

Interval

E-value

SET_NSD2

cd19211

SET domain (including post-SET domain) found in nuclear SET domain-containing protein 2 (NSD2) ...

1063-1204

5.20e-103

Pssm-ID: 380988 [Multi-domain] Cd Length: 142 Bit Score: 323.10 E-value: 5.20e-103

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19211     1 YPETKIIKTEGKGWGLIAKRDIKKGEFVNEYVGELIDEEECMARIKHAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19211    81 HSCQPNCETQKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGAPNCSGFLG 142

SET_NSD

cd19173

SET domain (including post-SET domain) found in nuclear SET domain-containing proteins, NSD1, ...

1063-1204

2.13e-100

SET domain (including post-SET domain) found in nuclear SET domain-containing proteins, NSD1, NSD2, NSD3 and similar proteins; The nuclear receptor-binding SET Domain (NSD) family of histone H3 lysine 36 methyltransferases is comprised of NSD1, NSD2, and NSD3, which are primarily known to be involved in chromatin integrity and gene expression through mono-, di-, or tri-methylating lysine 36 of histone H3 (H3K36), respectively. NSD1 (EC 2.1.1.43; also termed histone-lysine N-methyltransferase H3 lysine-36 and H4 lysine-20 specific, androgen receptor coactivator 267 kDa protein (ARA267), androgen receptor-associated protein of 267 kDa, H3-K36-HMTase, H4-K20-HMTase, lysine N-methyltransferase 3B (KMT3B) or NR-binding SET domain-containing protein 1) functions as a histone-lysine N-methyltransferase that preferentially methylates 'Lys-36' of histone H3 and 'Lys-20' of histone H4. NSD2 (EC 2.1.1.43; also termed multiple myeloma SET domain-containing protein (MMSET), protein trithorax-5 (TRX5), or wolf-Hirschhorn syndrome candidate 1 protein (WHSC1)) acts as histone-lysine N-methyltransferase with histone H3 'Lys-27' (H3K27me) methyltransferase activity. NSD3 (EC 2.1.1.43; also termed protein whistle, WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1L1), or WHSC1-like protein 1) functions as a histone-lysine N-methyltransferase that preferentially methylates 'Lys-4' and 'Lys-27' of histone H3.

Pssm-ID: 380950 [Multi-domain] Cd Length: 142 Bit Score: 316.18 E-value: 2.13e-100

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19173     1 YPPTEPFKTGDRGWGLRTKRDIKKGDFVIEYVGELIDEEECRRRLKKAHENNITNFYMLTLDKDRIIDAGPKGNLSRFMN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19173    81 HSCQPNCETQKWTVNGDTRVGLFAVRDIPAGEELTFNYNLDCLGNEKKVCRCGAPNCSGFLG 142

SET_NSD1

cd19210

SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing ...

1063-1204

6.14e-90

SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing protein 1 (NSD1) and similar proteins; NSD1 (EC 2.1.1.43; also termed Histone-lysine N-methyltransferase H3 lysine-36 and H4 lysine-20 specific, androgen receptor coactivator 267 kDa protein (ARA267), androgen receptor-associated protein of 267 kDa, H3-K36-HMTase, H4-K20-HMTase, lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein 1) functions as a histone-lysine N-methyltransferase that preferentially methylates 'Lys-36' of histone H3 and 'Lys-20' of histone H4. NSD1 is altered in approximately 10% of head and neck cancer patients with 55% decrease in risk of death in NSD1-mutated versus non-mutated patients; its disruption promotes favorable chemotherapeutic responses linked to hypomethylation.

Pssm-ID: 380987 [Multi-domain] Cd Length: 142 Bit Score: 287.21 E-value: 6.14e-90

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19210     1 YPEVEIFRTLGRGWGLRCKTDIKKGEFVNEYVGELIDEEECRARIRYAQEHDITNFYMLTLDKDRIIDAGPKGNYARFMN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19210    81 HCCQPNCETQKWTVNGDTRVGLFALCDIKAGTELTFNYNLECLGNGKTVCKCGAPNCSGFLG 142

SET_NSD3

cd19212

SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing ...

1063-1204

7.88e-89

SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing protein 3 (NSD3) and similar proteins; NSD3 (EC 2.1.1.43; also termed protein whistle, WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1L1), or WHSC1-like protein 1) functions as a histone-lysine N-methyltransferase that preferentially methylates 'Lys-4' and 'Lys-27' of histone H3. NSD3 is amplified and overexpressed in multiple cancer types, including acute myeloid leukemia (AML), breast, lung, pancreatic and bladder cancers, as well as squamous cell carcinoma of the head and neck (SCCHN). NSD3 contributes to tumorigenesis by interacting with bromodomain-containing protein 4 (BRD4), the bromodomain and extraterminal (BET) protein, which is a potential therapeutic target in acute myeloid leukemia (AML). NSD3 is amplified in primary tumors and cell lines from breast carcinoma, and can promote the cell viability of small-cell lung cancer and pancreatic ductal adenocarcinoma. High NSD3 expression is implicated in poor grade and heavy smoking history in SCCHN. Thus, NSD3 may serve as a potential druggable target for selective cancer therapy.

Pssm-ID: 380989 [Multi-domain] Cd Length: 142 Bit Score: 284.13 E-value: 7.88e-89

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19212     1 YPDAEIIKTERRGWGLRTKRSIKKGEFVNEYVGELIDEEECRLRIKRAHENSVTNFYMLTVTKDRIIDAGPKGNYSRFMN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19212    81 HSCNPNCETQKWTVNGDVRVGLFALCDIPAGMELTFNYNLDCLGNGRTECHCGADNCSGFLG 142

PWWP_NSD2_rpt1

cd20162

first PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; ...

220-347

3.32e-87

Pssm-ID: 438990 Cd Length: 128 Bit Score: 278.72 E-value: 3.32e-87

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKLCQESAK 299
Cdd:cd20162     1 YNVGDLVWSKVSGYPWWPCMVSADPLLHSHTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVPFEGEGQFEQLCQESAK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611  300 QAPTKAEKIKLLKPISGRLRAQWEMGIVQAEEAASMSIEERKAKFTFL 347
Cdd:cd20162    81 QAPTKAEKIKLLKPISGKLRAQWDMGIVQAEEAASMTVEERKAKFTFL 128

PWWP_NSD2_rpt2

cd20165

second PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar ...

880-975

1.06e-70

Pssm-ID: 438993 Cd Length: 96 Bit Score: 231.00 E-value: 1.06e-70

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  880 HFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRGIGRVF 959
Cdd:cd20165     1 RFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSKYQGGKGIGKVF 80

                          90
                  ....*....|....*.
gi 568933611  960 KNALQEAEARFNEVKL 975
Cdd:cd20165    81 KNALQEAEARFREIKL 96

SET_SETD2-like

cd10531

SET domain (including post-SET domain) found in SET domain-containing protein 2 (SETD2), ...

1067-1200

2.59e-64

SET domain (including post-SET domain) found in SET domain-containing protein 2 (SETD2), nuclear SETD2 (NSD2), ASH1-like protein (ASH1L) and similar proteins; This family includes SET domain-containing protein 2 (SETD2), nuclear SETD2 (NSD2) and ASH1-like protein (ASH1L), which function as histone-lysine N-methyltransferases. SETD2 specifically trimethylates 'Lys-36' of histone H3 (H3K36me3) using demethylated 'Lys-36' (H3K36me2) as substrate. NSD2 shows histone H3 'Lys-27' (H3K27me) methyltransferase activity. ASH1L specifically methylates 'Lys-36' of histone H3 (H3K36me). The family also includes Arabidopsis thaliana ASH1-related protein 3 (ASHR3) and similar proteins.

Pssm-ID: 380929 Cd Length: 136 Bit Score: 214.04 E-value: 2.59e-64

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1067 KIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQ 1146
Cdd:cd10531     3 ELFRTEKKGWGVKAKEDIQKGEFIIEYVGEVIDKKEFKERLDEYEELGKSNFYILSLSDDVVIDATRKGNLSRFINHSCE 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611 1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCS 1200
Cdd:cd10531    83 PNCETQKWIVNGEYRIGIFALRDIPAGEELTFDYNFVNYNEAKQVCLCGAQNCR 136

SET_SETD2

cd19172

SET domain (including post-SET domain) found in SET domain-containing protein 2 (SETD2) and ...

1063-1204

3.14e-64

SET domain (including post-SET domain) found in SET domain-containing protein 2 (SETD2) and similar proteins; SETD2 (also termed HIF-1, huntingtin yeast partner B, huntingtin-interacting protein 1 (HIP-1), huntingtin-interacting protein B, lysine N-methyltransferase 3A or protein-lysine N-methyltransferase SETD2) acts as histone-lysine N-methyltransferase that specifically trimethylates 'Lys-36' of histone H3 (H3K36me3) using demethylated 'Lys-36' (H3K36me2) as substrate. It has been shown that methylation is a posttranslational modification of dynamic microtubules and that SETD2 methylates alpha-tubulin at lysine 40, the same lysine that is marked by acetylation on microtubules. Methylation of microtubules occurs during mitosis and cytokinesis and can be ablated by SETD2 deletion, which causes mitotic spindle and cytokinesis defects, micronuclei, and polyploidy.

Pssm-ID: 380949 [Multi-domain] Cd Length: 142 Bit Score: 214.37 E-value: 3.14e-64

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1063 YPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMN 1142
Cdd:cd19172     1 YAKVEVFRTEKKGWGLRAAEDLPKGTFVIEYVGEVLDEKEFKRRMKEYAREGNRHYYFMALKSDEIIDATKKGNLSRFIN 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1143 HSCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNCSGFLG 1204
Cdd:cd19172    81 HSCEPNCETQKWTVNGELRVGFFAKRDIPAGEELTFDYQFERYGKEAQKCYCGSPNCRGYIG 142

PWWP_NSD3_rpt1

cd20163

first PWWP domain found in nuclear SET domain-containing protein 3 (NSD3) and similar proteins; ...

220-349

6.47e-56

first PWWP domain found in nuclear SET domain-containing protein 3 (NSD3) and similar proteins; NSD3, also called histone-lysine N-methyltransferase NSD3, protein whistle, WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant-homeodomain (PHD) zinc finger motifs, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD domains are involved in protein-protein interactions. This model corresponds to the first PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438991 Cd Length: 130 Bit Score: 190.14 E-value: 6.47e-56

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPLLHNHTKLkgQKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKLCQESAK 299
Cdd:cd20163     1 FQVGDLVWSKVGTYPWWPCMVSSDPQLEVHTKI--NTRGAREYHVQFFSSQPERAWVHEKRVREYKGHKQYEELLAEATK 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 568933611  300 QAPTKAEKIKLLKPISGRLRAQWEMGIVQAEEAASMSIEERKAKFTFLYV 349
Cdd:cd20163    79 QASNHSEKQKIRKPRPQRERAQWDIGIAHAEKALKMTREERIEQYTFIYI 128

PWWP_NSD_rpt1

cd20144

first PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

222-333

1.74e-54

first PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein family consists of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1 that are critical in maintaining the chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising in suppressing cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and play nonredundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, through mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (C5HCH). This model corresponds to the first PWWP domain. This family also includes Drosophila melanogaster maternal-effect sterile 4 (dMes4) that may act as a histone-lysine N-methyltransferase required for wing morphogenesis. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438972 Cd Length: 114 Bit Score: 185.21 E-value: 1.74e-54

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  222 VGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKG-QKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKLCQESAKQ 300
Cdd:cd20144     1 VGDLVWAKVSGHPWWPCMVTYDPESGLYTKIKGsGGRTYRQYHVQFFGDNGERGWVSEKSLMPFEGKEKFEELVKELKKK 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 568933611  301 APTKAEKIKLLKPISGRLRAQWEMGIVQAEEAA 333
Cdd:cd20144    81 AKKKSKKAKLEKKVKPSRRKKWEIAVEEAEEAL 113

SET_ASHR3-like

cd19175

SET domain (including post-SET domain) found in Arabidopsis thaliana ASH1-related protein 3 ...

1067-1204

3.01e-54

SET domain (including post-SET domain) found in Arabidopsis thaliana ASH1-related protein 3 (ASHR3) and similar proteins; This family includes Arabidopsis thaliana ASH1-related protein 3 (ASHR3, also termed protein SET DOMAIN GROUP 4 or protein stamen loss), ASH1 homolog 3 (ASHH3, also termed protein SET DOMAIN GROUP 7) and homolog 4 (ASHH4, also termed protein SET DOMAIN GROUP 24). They all function as histone-lysine N-methyltransferases (EC 2.1.1.43).

Pssm-ID: 380952 [Multi-domain] Cd Length: 139 Bit Score: 185.70 E-value: 3.01e-54

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1067 KIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQ 1146
Cdd:cd19175     3 KLVKTEKCGWGLVADEDINAGEFIIEYVGEVIDDKTCEERLWDMKHKGEKNFYMCEIDKDMVIDATFKGNLSRFINHSCD 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568933611 1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTvCRCGASNCSGFLG 1204
Cdd:cd19175    83 PNCELQKWQVDGETRIGVFAIRDIKKGEELTYDYQFVQFGADQD-CHCGSKNCRGKLG 139

PWWP_NSD1_rpt2

cd20164

second PWWP domain found in nuclear receptor-binding SET domain-containing protein 1 (NSD1) ...

880-974

3.13e-54

second PWWP domain found in nuclear receptor-binding SET domain-containing protein 1 (NSD1) and similar proteins; NSD1, also called H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, androgen receptor coactivator 267 kDa protein, androgen receptor-associated protein of 267 kDa, H3-K36-HMTase H4-K20-HMTase, Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD domains are involved in protein-protein interactions. This model corresponds to the second PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438992 Cd Length: 96 Bit Score: 183.92 E-value: 3.13e-54

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  880 HFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRGIGRVF 959
Cdd:cd20164     1 HYKEVVWVKVGRYRWWPAEVCHPKSIPTNIQKMKHDIGEFPVLFFGSNDYLWTHQARVFPYMEGDVSSKDKMGKGVDGTY 80

                          90
                  ....*....|....*
gi 568933611  960 KNALQEAEARFNEVK 974
Cdd:cd20164    81 KKALQEAAVRFEELK 95

PWWP_NSD_rpt2

cd05838

second PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

880-975

4.50e-54

second PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein family consists of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising in suppressing cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they play nonredundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (C5HCH). This model corresponds to the second PWWP domain. The family also includes Drosophila melanogaster maternal-effect sterile 4 (dMes4) that may act as a histone-lysine N-methyltransferase required for wing morphogenesis. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438963 [Multi-domain] Cd Length: 96 Bit Score: 183.21 E-value: 4.50e-54

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  880 HFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRGIGRVF 959
Cdd:cd05838     1 LYGDIVWVKLGNYRWWPAEILHPREVPDNIQSLPHPPGEFPVRFFGSHDYYWVHRGRVFLFEEGDKGSKEKSKKSLDKSF 80

                          90
                  ....*....|....*.
gi 568933611  960 KNALQEAEARFNEVKL 975
Cdd:cd05838    81 KRALKEANEAFRELKA 96

SET_ASH1L

cd19174

SET domain (including post-SET domain) found in ASH1-like protein (ASH1L) and similar proteins; ...

1067-1204

3.97e-51

SET domain (including post-SET domain) found in ASH1-like protein (ASH1L) and similar proteins; ASH1L (EC 2.1.1.43; also termed absent small and homeotic disks protein 1 homolog, KMT2H, or lysine N-methyltransferase 2H) acts as histone-lysine N-methyltransferase that specifically methylates 'Lys-36' of histone H3 (H3K36me). It plays important roles in development; heterozygous mutation of ASH1L is associated with severe intellectual disability (ID) and multiple congenital anomaly (MCA).

Pssm-ID: 380951 [Multi-domain] Cd Length: 141 Bit Score: 176.71 E-value: 3.97e-51

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1067 KIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDiTHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQ 1146
Cdd:cd19174     3 ERFRTEDKGWGVRTKEPIKAGQFIIEYVGEVVSEQEFRRRMIEQYHNH-SHHYCLNLDSGMVIDGYRMGNEARFVNHSCD 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 568933611 1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEK-TVCRCGASNCSGFLG 1204
Cdd:cd19174    82 PNCEMQKWSVNGVYRIGLFALKDIPAGEELTYDYNFHSFNVEKqQPCKCGSPNCRGVIG 140

PWWP_NSD3_rpt2

cd20166

second PWWP domain found in nuclear SET domain-containing protein 3 (NSD3) and similar ...

880-974

8.70e-48

second PWWP domain found in nuclear SET domain-containing protein 3 (NSD3) and similar proteins; NSD3, also called histone-lysine N-methyltransferase NSD3, protein whistle, WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant-homeodomain (PHD) zinc finger motifs, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD domains are involved in protein-protein interactions. This model corresponds to the second PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438994 Cd Length: 95 Bit Score: 165.53 E-value: 8.70e-48

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  880 HFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSrYQGVRGIGRVF 959
Cdd:cd20166     1 HYKQIVWVKLGNYRWWPAEICNPRSVPLNIQGLKHDIGDFPVFFFGSHDYYWVHQGRVFPYVEGDKSF-AEGQTSINKTF 79

                          90
                  ....*....|....*
gi 568933611  960 KNALQEAEARFNEVK 974
Cdd:cd20166    80 KKALEEAAKRFQELK 94

SET

smart00317

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Putative methyl transferase, based on ...

1064-1187

4.83e-45

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Putative methyl transferase, based on outlier plant homologues

Pssm-ID: 214614 [Multi-domain] Cd Length: 124 Bit Score: 158.65 E-value: 4.83e-45

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   1064 PETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNH 1143
Cdd:smart00317    1 NKLEVFKSPGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERPKAYDTDGAKAFYLFDIDSDLCIDARRKGNLARFINH 80

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....
gi 568933611   1144 SCQPNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGN 1187
Cdd:smart00317   81 SCEPNCELLFVEVNGDDRIVIFALRDIKPGEELTIDYGSDYANE 124

SET_SETD1-like

cd10518

SET domain (including post-SET domain) found in SET domain-containing proteins (SETD1A/SETD1B), ...

1075-1199

8.72e-39

SET domain (including post-SET domain) found in SET domain-containing proteins (SETD1A/SETD1B), histone-lysine N-methyltransferases (KMT2A/KMT2B/KMT2C/KMT2D) and similar proteins; This family includes SET domain-containing protein 1A (SETD1A), 1B (SETD1B), as well as histone-lysine N-methyltransferase 2A (KMT2A), 2B (KMT2B), 2C (KMT2C), 2D (KMT2D). These proteins are histone-lysine N-methyltransferases (EC 2.1.1.43) that specifically methylate 'Lys-4' of histone H3 (H3K4me).

Pssm-ID: 380916 Cd Length: 150 Bit Score: 141.58 E-value: 8.72e-39

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd10518    25 GWGLFAKRPIAAGEMVIEYVGEVIRPIVADKREKRYDEEGGGGTYMFRIDEDLVIDATKKGNIARFINHSCDPNCYAKII 104

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 568933611 1155 TVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRCGASNC 1199
Cdd:cd10518   105 TVDGEKHIVIFAKRDIAPGEELTYDYKFPIEDEEKIPCLCGAPNC 149

SET

COG2940

SET domain-containing protein (function unknown) [General function prediction only];

1064-1201

1.13e-35

SET domain-containing protein (function unknown) [General function prediction only];

Pssm-ID: 442183 [Multi-domain] Cd Length: 134 Bit Score: 132.39 E-value: 1.13e-35

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1064 PETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNH 1143
Cdd:COG2940     6 PRIEVRPSPIHGRGVFATRDIPKGTLIGEYPGEVITWAEAERR---EPHKEPLHTYLFELDDDGVIDGALGGNPARFINH 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568933611 1144 SCQPNCEtlkwTVNGDTRVGLFAVCDIPAGTELTFNYNLDClGNEKTVCRCGasNCSG 1201
Cdd:COG2940    83 SCDPNCE----ADEEDGRIFIVALRDIAAGEELTYDYGLDY-DEEEYPCRCP--NCRG 133

SET_SUV39H

cd10542

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 ...

1040-1203

2.08e-33

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 homologs, SUV39H1, SUV39H2 and similar proteins; This family includes SUV39H1 (also termed histone H3-K9 methyltransferase 1, H3-K9-HMTase 1, lysine N-methyltransferase 1A, KMT1A, position-effect variegation 3-9 homolog, SUV39H, or Su(var)3-9 homolog 1) and SUV39H2 (also termed histone H3-K9 methyltransferase 2, H3-K9-HMTase 2, lysine N-methyltransferase 1B, KMT1B, or Su(var)3-9 homolog 2), both act as histone-lysine N-methyltransferases that specifically trimethylate 'Lys-9' of histone H3 (H3K9me3) using monomethylated H3 'Lys-9' as substrate. They mainly function in heterochromatin regions, thereby playing central roles in the establishment of constitutive heterochromatin at pericentric and telomere regions. Also included are Schizosaccharomyces pombe H3K9 methyltransferase Clr4 (SUV39H homolog) and Neurospora crassa DIM-5, both of which also methylate 'Lys-9' of histone H3.

Pssm-ID: 380940 [Multi-domain] Cd Length: 245 Bit Score: 129.72 E-value: 2.08e-33

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1040 FECHPQvCPAGEYCQNQCFTK-RQYPETkIIKT-DGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITH 1117
Cdd:cd10542    64 YECNSR-CKCGPDCPNRVVQRgRKVPLC-IFRTsNGRGWGVKTLEDIKKGTFVMEYVGEIITSEEAERRGKIYDANGRTY 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 FYMLTIDKDR---IIDAGPKGNYSRFMNHSCQPNCETLK-WTVNGDT---RVGLFAVCDIPAGTELTFNYNLDCLGN--- 1187
Cdd:cd10542   142 LFDLDYNDDDceyTVDAAYYGNISHFINHSCDPNLAVYAvWINHLDPrlpRIAFFAKRDIKAGEELTFDYLMTGTGGsse 221

                         170       180
                  ....*....|....*....|....
gi 568933611 1188 --------EKTVCRCGASNCSGFL 1203
Cdd:cd10542   222 stipkpkdVRVPCLCGSKNCRKYL 245

SET_EZH

cd10519

SET domain found in enhancer of zeste homolog 1 (EZH1), zeste homolog 2 (EZH2) and similar ...

1070-1180

3.40e-33

SET domain found in enhancer of zeste homolog 1 (EZH1), zeste homolog 2 (EZH2) and similar proteins; The family includes EZH1 and EZH2. EZH1 (EC 2.1.1.43; also termed ENX-2, or histone-lysine N-methyltransferase EZH1) is a catalytic subunit of the PRC2/EED-EZH1 complex, which methylates 'Lys-27' of histone H3, leading to transcriptional repression of the affected target gene. EZH2 (EC 2.1.1.43; also termed lysine N-methyltransferase 6, ENX-1, or histone-lysine N-methyltransferase EZH2) is a catalytic subunit of the PRC2/EED-EZH2 complex, which methylates 'Lys-9' (H3K9me) and 'Lys-27' (H3K27me) of histone H3, leading to transcriptional repression of the affected target gene. Both, EZH1 and EZH2, can mono-, di- and trimethylate 'Lys-27' of histone H3 to form H3K27me1, H3K27me2 and H3K27me3, respectively.

Pssm-ID: 380917 Cd Length: 117 Bit Score: 124.66 E-value: 3.40e-33

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1070 KTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThfYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNC 1149
Cdd:cd10519     7 KSDVAGWGLFLKEPIKKDEFIGEYTGELISQDEADRRGKIYDKYNSS--YLFNLNDQFVVDATRKGNKIRFANHSSNPNC 84

                          90       100       110
                  ....*....|....*....|....*....|.
gi 568933611 1150 ETLKWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd10519    85 YAKVMMVNGDHRIGIFAKRDIEAGEELFFDY 115

PWWP_NSD1_rpt1

cd20161

first PWWP domain found in nuclear receptor-binding SET domain-containing protein 1 (NSD1) and ...

218-334

5.23e-33

first PWWP domain found in nuclear receptor-binding SET domain-containing protein 1 (NSD1) and similar proteins; NSD1, also called H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, androgen receptor coactivator 267 kDa protein, androgen receptor-associated protein of 267 kDa, H3-K36-HMTase H4-K20-HMTase, Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD domains are involved in protein-protein interactions. The model corresponds to the first PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438989 Cd Length: 116 Bit Score: 124.12 E-value: 5.23e-33

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  218 LKYNVGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKG-QKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKL--C 294
Cdd:cd20161     2 VKYEVGDLVWAKFSRRPWWPCRICADPLLDTHSKMKVpSRRPCRQYYVETLGELTEKAWVAAKAVVPFEGRHQFEELpvL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 568933611  295 QESAKQaptkaeKIKLLKP-ISGRLRAQWEMGIVQAEEAAS 334
Cdd:cd20161    82 RRRGKQ------KEKDYKHkIPQKLLSLWEASVAHAEDFLS 116

SET

pfam00856

SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be ...

1075-1181

2.89e-32

Pssm-ID: 459965 [Multi-domain] Cd Length: 115 Bit Score: 121.86 E-value: 2.89e-32

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  1075 GWGLVAKRDIRKGEFVNEYVGE-LIDEEECMAR---IKYAHENDITHFYMLTIDKD--RIID--AGPKGNYSRFMNHSCQ 1146
Cdd:pfam00856    1 GRGLFATEDIPKGEFIGEYVEVlLITKEEADKRellYYDKLELRLWGPYLFTLDEDseYCIDarALYYGNWARFINHSCD 80

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 568933611  1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:pfam00856   81 PNCEVRVVYVNGGPRIVIFALRDIKPGEELTIDYG 115

SET_SETMAR

cd10544

SET domain (including pre-SET and post-SET domains) found in SET domain and mariner ...

1014-1203

3.52e-31

SET domain (including pre-SET and post-SET domains) found in SET domain and mariner transposase fusion protein (SETMAR) and similar proteins; SETMAR (also termed metnase) is a DNA-binding protein that is indirectly recruited to sites of DNA damage through protein-protein interactions. It has a sequence-specific DNA-binding activity recognizing the 19-mer core of the 5'-terminal inverted repeats (TIRs) of the Hsmar1 element and displays a DNA nicking and end joining activity. SETMAR also acts as a histone-lysine N-methyltransferase that methylates 'Lys-4' and 'Lys-36' of histone H3. It specifically mediates dimethylation of H3 'Lys-36' at sites of DNA double-strand break and may recruit proteins required for efficient DSB repair through non-homologous end-joining.

Pssm-ID: 380942 [Multi-domain] Cd Length: 254 Bit Score: 123.56 E-value: 3.52e-31

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1014 IPKCNCKptdENPCGSDSE--------------CLNRMLM------FECHPQvCPAGEYCQNQCFTKRQYPETKIIKTDG 1073
Cdd:cd10544    24 FPGCDCK---TSSCEPETCsclrkygpnydddgCLLDFDGkysgpvFECNSM-CKCSESCQNRVVQNGLQFKLQVFKTPK 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1074 KGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThfYMLTIDKDR--------IIDAGPKGNYSRFMNHSC 1145
Cdd:cd10544   100 KGWGLRTLEFIPKGRFVCEYAGEVIGFEEARRRTKSQTKGDMN--YIIVLREHLssgkvletFVDPTYIGNIGRFLNHSC 177

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1146 QPNCETLKWTVNGDT-RVGLFAVCDIPAGTELTFNY-------------NLDCLGNEKTVCRCGASNCSGFL 1203
Cdd:cd10544   178 EPNLFMVPVRVDSMVpKLALFAARDIVAGEELSFDYsgefsnsvesvtlARQDESKSRKPCLCGAENCRGFL 249

PHD3_NSD2

cd15654

PHD finger 3 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

764-817

2.42e-29

Pssm-ID: 277124 Cd Length: 54 Bit Score: 111.09 E-value: 2.42e-29

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  764 SCMSCHASNPSNPRPSKGKMMRCVRCPVAYHGGDACLAAGCSVIASNSIICTGH 817
Cdd:cd15654     1 SCVSCHASNPSNPRATKGKMMRCVRCPVAYHGGDLCIAAGCAVLTSNSIICTNH 54

SET_KMT2A_2B

cd19170

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2A (KMT2A), ...

1075-1203

6.02e-28

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2A (KMT2A), 2B (KMT2B) and similar proteins; This family includes KMT2A and KMT2B. Both KMT2A (also termed ALL-1 or CXXC7 or MLL or MLL1 or TRX1 or HRX) and KMT2B (also termed MLL4 or TRX2) act as histone methyltransferases that methylate 'Lys-4' of histone H3 (H3K4me).

Pssm-ID: 380947 [Multi-domain] Cd Length: 152 Bit Score: 110.94 E-value: 6.02e-28

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd19170    25 GRGLFCKRNIDAGEMVIEYAGEVIRSVLTDKREKYYESKGIG-CYMFRIDDDEVVDATMHGNAARFINHSCEPNCYSRVV 103

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 568933611 1155 TVNGDTRVGLFAVCDIPAGTELTFNYNLDcLGNEKTVCRCGASNCSGFL 1203
Cdd:cd19170   104 NIDGKKHIVIFALRRILRGEELTYDYKFP-IEDVKIPCTCGSKKCRKYL 151

SET_SETDB-like

cd10538

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1) ...

990-1181

1.80e-27

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1) and 2 (SETDB2), suppressor of variegation 3-9 homologs, SUV39H1 and SUV39H2, euchromatic histone-lysine N-methyltransferase EHMT1 and EHMT2, and similar proteins; The family includes SET domain bifurcated 1 (SETDB1) and 2 (SETDB2), suppressor of variegation 3-9 homologs, SUV39H1 and SUV39H2, euchromatic histone-lysine N-methyltransferase EHMT1 and EHMT2. SETDB1 (EC 2.1.1.43; also termed ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. SETDB2 (EC 2.1.1.43; also termed chronic lymphocytic leukemia deletion region gene 8 protein (CLLD8), or lysine N-methyltransferase 1F (KMT1F)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It is involved in left-right axis specification in early development and mitosis. SUV39H1 (also termed histone H3-K9 methyltransferase 1, H3-K9-HMTase 1, lysine N-methyltransferase 1A, KMT1A, position-effect variegation 3-9 homolog, SUV39H, or Su(var)3-9 homolog 1) and SUV39H2 (also termed histone H3-K9 methyltransferase 2, H3-K9-HMTase 2, lysine N-methyltransferase 1B, KMT1B, or Su(var)3-9 homolog 2), both act as histone-lysine N-methyltransferases that specifically trimethylate 'Lys-9' of histone H3 (H3K9me3) using monomethylated H3 'Lys-9' as substrate. They mainly function in heterochromatin regions, thereby playing central roles in the establishment of constitutive heterochromatin at pericentric and telomere regions. EHMT1 (also termed Eu-HMTase1, G9a-like protein 1, GLP, GLP1, histone H3-K9 methyltransferase 5, H3-K9-HMTase 5, lysine N-methyltransferase 1D, or KMT1D) and EHMT2 (also termed Eu-HMTase2, HLA-B-associated transcript 8, histone H3-K9 methyltransferase 3, H3-K9-HMTase 3, lysine N-methyltransferase 1C, KMT1C, or protein G9a), both act as histone-lysine N-methyltransferases that specifically mono- and dimethylate 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin. This family also includes the pre-SET domain, which is found in a number of histone methyltransferases (HMTase), N-terminal to the SET domain. Pre-SET domain is a zinc binding motif which contains 9 conserved cysteines that coordinate three zinc ions. It is thought that this region plays a structural role in stabilizing SET domains. Most family members, except for Arabidopsis thaliana SUVH9, contain a post-SET domain which harbors a zinc-binding site.

Pssm-ID: 380936 [Multi-domain] Cd Length: 217 Bit Score: 111.69 E-value: 1.80e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  990 PPYKHIKVNKPYGKVQIYtADISEIPKCNCKPtdenPCgSDSECLNRMLM---------------------FECHPQvCP 1048
Cdd:cd10538     1 PSFTYIKDNIVGKNVQPF-SNIIDSVGCKCKD----DC-LDSKCACAAESdgifaytkngllrlnnspppiFECNSK-CS 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1049 AGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThfYMLTIDKDR- 1127
Cdd:cd10538    74 CDDDCKNRVVQRGLQARLQVFRTSKKGWGVRSLEFIPKGSFVCEYVGEVITTSEADRRGKIYDKSGGS--YLFDLDEFSd 151

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611 1128 --------IIDAGPKGNYSRFMNHSCQPNCETLK-WTVNGDT---RVGLFAVCDIPAGTELTFNYN 1181
Cdd:cd10538   152 sdgdgeelCVDATFCGNVSRFINHSCDPNLFPFNvVIDHDDLrypRIALFATRDILPGEELTFDYG 217

PWWP

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...

883-971

2.35e-27

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 106.74 E-value: 2.35e-27

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   883 DIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSRYQGVRG--IGRVFK 960
Cdd:pfam00855    2 DLVWAKLKGYPWWPARVVDPEELPENVLKPKKKDGEYLVRFFGDSEFAWVKPKDLKPFDEGDEFEYLKKKKKkkKKKAFK 81

                           90
                   ....*....|.
gi 568933611   961 NALQEAEARFN 971
Cdd:pfam00855   82 KALEEAEEALK 92

SET_KMT2C_2D

cd19171

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2C (KMT2C), ...

1074-1199

2.76e-27

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2C (KMT2C), 2D (KMT2D) and similar proteins; This family includes KMT2C and KMT2D. Both, KMT2C (also termed HALR or MLL3) and KMT2D (also termed ALR or MLL2), act as histone methyltransferases that methylate 'Lys-4' of histone H3 (H3K4me). They are subunits of MLL2/3 complex, a coactivator complex of nuclear receptors, involved in transcriptional coactivation.

Pssm-ID: 380948 [Multi-domain] Cd Length: 153 Bit Score: 109.06 E-value: 2.76e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1074 KGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIK-YAHENdiTHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETL 1152
Cdd:cd19171    24 QGLGLYAARDIEKHTMVIEYIGEIIRNEVANRREKiYESQN--RGIYMFRIDNDWVIDATMTGGPARYINHSCNPNCVAE 101

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611 1153 KWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNE-KTVCRCGASNC 1199
Cdd:cd19171   102 VVTFDKEKKIIIISNRRIAKGEELTYDYKFDFEDDQhKIPCLCGAPNC 149

SET_SUV39H_DIM5-like

cd19473

SET domain (including pre-SET domain) found in Neurospora crassa (DIM-5) and similar proteins; ...

1036-1203

3.20e-27

SET domain (including pre-SET domain) found in Neurospora crassa (DIM-5) and similar proteins; This subfamily contains Neurospora crassa DIM-5 (also termed H3-K9-HMTase dim-5, or HKMT) which functions as histone-lysine N-methyltransferase that specifically trimethylates histone H3 to form H3K9me3.

Pssm-ID: 380996 [Multi-domain] Cd Length: 274 Bit Score: 112.80 E-value: 3.20e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1036 RMLMFECHPQvCPAGEYCQNQCFTK-RQYPeTKIIKT-DGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHEN 1113
Cdd:cd19473    78 RLPIYECHEG-CACSDDCPNRVVERgRKVP-LQIFRTsDGRGWGVRSTVDIKRGQFVDCYVGEIITPEEAQRRRDAATIA 155

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1114 DITHFYMLTIDK--------DRI------ID----AGPkgnySRFMNHSCQPNCETLkwtvngdTRVG-----------L 1164
Cdd:cd19473   156 QRKDVYLFALDKfsdpdsldPRLrgdpyeIDgefmSGP----TRFINHSCDPNLRIF-------ARVGdhadkhihdlaF 224

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 568933611 1165 FAVCDIPAGTELTFNY-----------NLDCLGNEKTVCRCGASNCSGFL 1203
Cdd:cd19473   225 FAIKDIPRGTELTFDYvdgvtgldddaGDEEKEKEMTKCLCGSPKCRGYL 274

SET_LegAS4-like

cd10522

SET domain found in Legionella pneumophila type IV secretion system effector LegAS4 and ...

1072-1181

7.90e-27

SET domain found in Legionella pneumophila type IV secretion system effector LegAS4 and similar proteins; LegAS4 is a type IV secretion system effector of Legionella pneumophila. It contains a SET domain that is involved in the modification of Lys4 of histone H3 (H3K4) in the nucleolus of the host cell, thereby enhancing heterochromatic rDNA transcription. It also contains an ankyrin repeat domain of unknown function at its C-terminal region.

Pssm-ID: 380920 [Multi-domain] Cd Length: 122 Bit Score: 106.66 E-value: 7.90e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1072 DGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDithfYMLTIDKD-RIIDAGPKGNYSRFMNHSCQPNCE 1150
Cdd:cd10522    11 SHNGLGLFAAETIAKGEFVGEYTGEVLDRWEEDRDSVYHYDPL----YPFDLNGDiLVIDAGKKGNLTRFINHSDQPNLE 86

                          90       100       110
                  ....*....|....*....|....*....|.
gi 568933611 1151 TLKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:cd10522    87 LIVRTLKGEQHIGFVAIRDIKPGEELFISYG 117

SET_SETD1

cd19169

SET domain (including post-SET domain) found in SET domain-containing protein 1 (SETD1) and ...

1075-1199

8.78e-27

SET domain (including post-SET domain) found in SET domain-containing protein 1 (SETD1) and similar proteins; This family includes SET domain-containing protein 1A (SETD1A) and SET domain-containing protein 1B (SETD1B). These proteins are histone-lysine N-methyltransferases that specifically methylate 'Lys-4' of histone H3 (H3K4me) when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring 'Lys-9' residue is already methylated.

Pssm-ID: 380946 Cd Length: 148 Bit Score: 107.42 E-value: 8.78e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd19169    24 DWGLFALEPIAADEMVIEYVGQVIRQSVADEREKRYEAIGIGSSYLFRVDDDTIIDATKCGNLARFINHSCNPNCYAKII 103

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 568933611 1155 TVNGDTRVGLFAVCDIPAGTELTFNYNLDcLGNEKTVCRCGASNC 1199
Cdd:cd19169   104 TVESQKKIVIYSKRPIAVNEEITYDYKFP-IEDEKIPCLCGAPQC 147

PHD5_NSD2

PHD finger 5 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

1242-1284

4.15e-26

Pssm-ID: 277130 Cd Length: 43 Bit Score: 101.55 E-value: 4.15e-26

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1242 ECFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15660     1 ECFRCGDGGQLVLCDRKSCTKAYHLSCLGLTKRPFGKWECPWH 43

PWWP_ZCWPW1

cd20145

PWWP domain found in zinc finger CW-type PWWP domain protein 1 (ZCWPW1) and similar proteins; ...

219-346

1.07e-25

PWWP domain found in zinc finger CW-type PWWP domain protein 1 (ZCWPW1) and similar proteins; ZCWPW1 is a histone H3K4me3 reader. It is associated with late-onset Alzheimer's disease (LOAD). In addition to the PWWP domain, ZCWPW1 contains a zinc finger CW (zf-CW) domain that is a histone modification reader for the histone H3 tail with trimethylated K4. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438973 Cd Length: 115 Bit Score: 103.01 E-value: 1.07e-25

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  219 KYNVGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEqfeklcqesa 298
Cdd:cd20145     5 KYTPGSLVWAKMPGYPWWPAMVEDDPDTEEFFWLDEESDIPTKYHVTFFDKPVSRAWVRASSIKPFTDNS---------- 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611  299 kqaptkaEKIKLLKPISGRLRAQWEMGIVQAEEAASMSIEERKAKFTF 346
Cdd:cd20145    75 -------NEPNLTKKKGKKYKKRLNEAVEMAREALKLSIKERLKKFGF 115

SET_SET1

cd20072

SET domain (including post-SET domain) found in catalytic component of the Saccharomyces ...

1076-1199

2.67e-25

SET domain (including post-SET domain) found in catalytic component of the Saccharomyces cerevisiae COMPASS complex and similar proteins; The family contains mostly fungal SET domains, including SET1 found in the catalytic component of the Saccharomyces cerevisiae COMPASS (complex of proteins associated with Set1). SET1 is a histone-lysine N-methyltransferase that specifically methylates 'Lys-4' of histone H3 (H3K4me), when part of the SET1 histone methyltransferase (HMT) complex. The activity of this catalytic domain is established through forming a complex with a set of core proteins; it is extensively contacted by Cps60 (Bre2), Cps50 (Swd1), and Cps30 (Swd3).

Pssm-ID: 380998 Cd Length: 148 Bit Score: 103.27 E-value: 2.67e-25

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1076 WGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWT 1155
Cdd:cd20072    25 WGLYAMENISAKDMVIEYVGEVIRQQVADEREKRYLRQGIGSSYLFRIDDDTVVDATKKGNIARFINHCCDPNCTAKIIK 104

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 568933611 1156 VNGDTRVGLFAVCDIPAGTELTFNYNLDcLGNEKTVCRCGASNC 1199
Cdd:cd20072   105 VEGEKRIVIYAKRDIAAGEELTYDYKFP-REEDKIPCLCGAPNC 147

SET_SUV39H2

cd10532

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 ...

1039-1203

1.24e-24

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 homolog 2 (SUV39H2) and similar proteins; SUV39H2 (EC 2.1.1.43; also termed histone H3-K9 methyltransferase 2, H3-K9-HMTase 2, lysine N-methyltransferase 1B (KMT1B), or Su(var)3-9 homolog 2) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3) using monomethylated H3 'Lys-9' as substrate. It mainly functions in heterochromatin regions, thereby playing a central role in the establishment of constitutive heterochromatin at pericentric and telomere regions.

Pssm-ID: 380930 [Multi-domain] Cd Length: 243 Bit Score: 104.20 E-value: 1.24e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1039 MFECHPQvCPAGEYCQNQCFTKRQYPETKIIKT-DGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITH 1117
Cdd:cd10532    60 IYECNSR-CKCGPDCPNRVVQKGTQYSLCIFRTsNGRGWGVKTLQKIKKNSFVMEYVGEVITSEEAERRGQFYDSKGITY 138

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 FYMLTIDKDRI-IDAGPKGNYSRFMNHSCQPNCETLKWTV-NGDT---RVGLFAVCDIPAGTELTFNYNLDCLGNE---- 1188
Cdd:cd10532   139 LFDLDYESDEFtVDAARYGNVSHFVNHSCDPNLQVFNVFIdNLDTrlpRIALFSTRTIKAGEELTFDYQMKGSGDLssds 218

                         170       180
                  ....*....|....*....|....*
gi 568933611 1189 ----------KTVCRCGASNCSGFL 1203
Cdd:cd10532   219 idnspakkrvRTVCKCGAVTCRGYL 243

PWWP_MSH6

cd05837

PWWP domain found in DNA mismatch repair protein MSH6 and similar proteins; MSH6, also called ...

220-340

2.77e-24

PWWP domain found in DNA mismatch repair protein MSH6 and similar proteins; MSH6, also called G/T mismatch-binding protein (GTBP or GTMBP), MutS protein homolog 6, or MutS-alpha 160 kDa subunit (p160), is a mismatch repair protein homologous to bacterial MutS. It is a component of the post-replicative DNA mismatch repair system (MMR). It heterodimerizes with MSH2 to form MutS alpha, which binds to DNA mismatches thereby initiating DNA repair. When bound, MutS alpha bends the DNA helix and shields approximately 20 base pairs, and recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. After mismatch binding, it forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. MSH6 contains a PWWP domain, but its role in MSH6 remains unclear. MSH6 orthologs found in Saccharomyces cerevisiae, Caenorhabditis elegans, and Arabidopsis thaliana lack the PWWP domain. PWWP domains typically recognize DNA and histone methylated lysines.

Pssm-ID: 438962 Cd Length: 103 Bit Score: 98.51 E-value: 2.77e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSadpllhNHTKLKGQKKSAR--QYHVQFFGDAPERAWIFEKSLVAFEGeeqfeklcqes 297
Cdd:cd05837     1 FSPGDLVWAKLEGYPWWPSLVC------NHPTTGFHKKFGKkgEVHVQFFDDPPSRAWVKAKNVKPFTG----------- 63

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 568933611  298 akqaPTKAEKIKLLKPISGrlRAQWEMGIVQAEEAASMSIEER 340
Cdd:cd05837    64 ----SDDKEFQKGGMFFSK--DPKWKKAVKEADKALKLSVEER 100

HMG-box_NSD2

cd21991

high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and ...

452-507

3.46e-23

Pssm-ID: 438807 [Multi-domain] Cd Length: 62 Bit Score: 93.92 E-value: 3.46e-23

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  452 RKGDSAAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:cd21991     1 KKKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARYKSKFA 56

PWWP

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

879-941

7.88e-23

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 92.79 E-value: 7.88e-23

                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568933611    879 LHFQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYM 941
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKMTPDNIMKRKSDENLYPVLFFGDKDTAWIPSSKLFPLT 63

SET_SETD8

cd10528

SET domain found in SET domain-containing protein 8 (SETD8) and similar proteins; SETD8 (EC 2. ...

1066-1180

8.74e-23

SET domain found in SET domain-containing protein 8 (SETD8) and similar proteins; SETD8 (EC 2.1.1.43; also termed N-lysine methyltransferase KMT5A, H4-K20-HMTase KMT5A, lysine N-methyltransferase 5A, lysine-specific methylase 5A, PR/SET domain-containing protein 07, PR-Set7 or PR/SET07) is a nucleosomal histone-lysine N-methyltransferase that specifically monomethylates 'Lys-20' of histone H4 (H4K20me1). It plays a central role in the silencing of euchromatic genes.

Pssm-ID: 380926 [Multi-domain] Cd Length: 141 Bit Score: 95.72 E-value: 8.74e-23

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1066 TKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMAR-IKYAhENDITHFYMLTI---DKDRIIDA-GPKGNYSRF 1140
Cdd:cd10528    19 LKVIEIDGKGRGVIATRPFEKGDFVVEYHGDLITITEAKKReALYA-KDPSTGCYMYYFqykGKTYCVDAtKESGRLGRL 97

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 568933611 1141 MNHSCQ-PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd10528    98 INHSKKkPNLKTKLLVIDGVPHLILVAKRDIKPGEELLYDY 138

PHD5_NSD

cd15568

PHD finger 5 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

1242-1284

1.16e-22

PHD finger 5 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein is a family of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising to help suppress cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they play non-redundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). This model corresponds to the fifth PHD finger.

Pssm-ID: 277043 [Multi-domain] Cd Length: 43 Bit Score: 92.01 E-value: 1.16e-22

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1242 ECFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15568     1 ECFRCGDGGDLVLCDFKGCPKVYHLSCLGLEKPPGGKWICPWH 43

PHD2_NSD2

cd15651

PHD finger 2 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

717-763

5.27e-22

Pssm-ID: 277121 Cd Length: 47 Bit Score: 90.29 E-value: 5.27e-22

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  717 SCFVCKESKMEVKRCVVNQCGKFYHEACVKKYPLTVFESRGFRCPLH 763
Cdd:cd15651     1 SCFVCKESKGDVKRCVVLHCGKFYHEACVRKYPLTVFENRGFRCPLH 47

SET_EZH2

cd19218

SET domain found in enhancer of zeste homolog 2 (EZH2) and similar proteins; EZH2 (EC 2.1.1.43) ...

1071-1180

7.08e-22

SET domain found in enhancer of zeste homolog 2 (EZH2) and similar proteins; EZH2 (EC 2.1.1.43), also termed lysine N-methyltransferase 6, or ENX-1, or histone-lysine N-methyltransferase EZH2, is a catalytic subunit of the polycomb repressive complex 2 (PRC2)/EED-EZH2 complex, which methylates 'Lys-9' (H3K9me) and 'Lys-27' (H3K27me) of histone H3, leading to transcriptional repression of the affected target gene. It can mono-, di- and trimethylate 'Lys-27' of histone H3 to form H3K27me1, H3K27me2 and H3K27me3, respectively. PRC2 is involved in several cancers; EZH2 is overexpressed in breast, liver and prostate cancer, while point mutations in EZH2 alter the substrate preference and product specificity of PRC2 in Non-Hodgkin lymphomas (NHLs). Thus, PRC2 is a popular target for cancer therapeutics.

Pssm-ID: 380995 Cd Length: 120 Bit Score: 92.28 E-value: 7.08e-22

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1071 TDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKyAHENDITHFyMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCE 1150
Cdd:cd19218    11 SDVAGWGIFIKDPVQKNEFISEYCGEIISQDEADRRGK-VYDKYMCSF-LFNLNNDFVVDATRKGNKIRFANHSVNPNCY 88

                          90       100       110
                  ....*....|....*....|....*....|
gi 568933611 1151 TLKWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd19218    89 AKVMMVNGDHRIGIFAKRAIQTGEELFFDY 118

PHD3_NSD1

cd15653

PHD finger 3 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, ...

765-817

9.28e-22

PHD finger 3 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, also termed H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, or androgen receptor coactivator 267 kDa protein, or androgen receptor-associated protein of 267 kDa, or H3-K36-HMTase H4-K20-HMTase, or Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the third PHD finger.

Pssm-ID: 277123 Cd Length: 54 Bit Score: 89.60 E-value: 9.28e-22

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 568933611  765 CMSCHASNPSNPRPSKGKMMRCVRCPVAYHGGDACLAAGCSVIASNSIICTGH 817
Cdd:cd15653     2 CLTCHATNPSNPSASKGRLMRCVRCPVAYHANDFCLAAGSVILASNSIICPNH 54

PHD4_NSD2

cd15657

PHD finger 4 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

834-874

1.12e-21

Pssm-ID: 277127 Cd Length: 41 Bit Score: 88.91 E-value: 1.12e-21

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMPDGSWFCNDCR 874
Cdd:cd15657     1 WCFVCSKGGSLLCCESCPAAFHPDCLNIEMPDGSWFCNDCR 41

SET_EZH1

cd19217

SET domain found in enhancer of zeste homolog 1 (EZH1) and similar proteins; EZH1 (EC 2.1.1.43) ...

1071-1180

4.85e-21

SET domain found in enhancer of zeste homolog 1 (EZH1) and similar proteins; EZH1 (EC 2.1.1.43), also termed ENX-2, or histone-lysine N-methyltransferase EZH1, is a catalytic subunit of the PRC2/EED-EZH1 complex, which methylates 'Lys-27' of histone H3, leading to transcriptional repression of the affected target gene. It can mono-, di- and trimethylate 'Lys-27' of histone H3 to form H3K27me1, H3K27me2 and H3K27me3, respectively.

Pssm-ID: 380994 Cd Length: 136 Bit Score: 90.51 E-value: 4.85e-21

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1071 TDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKyAHENDITHFyMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCE 1150
Cdd:cd19217    13 SDVAGWGTFIKESVQKNEFISEYCGELISQDEADRRGK-VYDKYMSSF-LFNLNNDFVVDATRKGNKIRFANHSVNPNCY 90

                          90       100       110
                  ....*....|....*....|....*....|
gi 568933611 1151 TLKWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd19217    91 AKVVMVNGDHRIGIFAKRAIQQGEELFFDY 120

SET_KMT2A

cd19206

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2A (KMT2A) ...

1075-1203

4.86e-21

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2A (KMT2A) and similar proteins; KMT2A (EC2.1.1.43; also termed lysine N-methyltransferase 2A, ALL-1, CXXC-type zinc finger protein 7 (CXXC7), myeloid/lymphoid or mixed-lineage leukemia (MLL), myeloid/lymphoid or mixed-lineage leukemia protein 1 (MLL1), trithorax-like protein (TRX1), or zinc finger protein HRX) acts as a histone methyltransferase that plays an essential role in early development and hematopoiesis. It is a catalytic subunit of the MLL1/MLL complex, a multiprotein complex that mediates both methylation of 'Lys-4' of histone H3 (H3K4me) complex and acetylation of 'Lys-16' of histone H4 (H4K16ac).

Pssm-ID: 380983 [Multi-domain] Cd Length: 154 Bit Score: 91.24 E-value: 4.86e-21

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd19206    25 GRGLFCKRNIDAGEMVIEYSGNVIRSILTDKREKYYDSKGIG-CYMFRIDDSEVVDATMHGNAARFINHSCEPNCYSRVI 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568933611 1155 TVNGDTRVGLFAVCDIPAGTELTFNYN--LDCLGNeKTVCRCGASNCSGFL 1203
Cdd:cd19206   104 NIDGQKHIVIFAMRKIYRGEELTYDYKfpIEDASN-KLPCNCGAKKCRKFL 153

PWWP

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...

223-307

7.47e-21

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 88.25 E-value: 7.47e-21

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611   223 GDLVWSKVSGYPWWPCMVSADPLLHNHTKLKgqKKSARQYHVQFFGDaPERAWIFEKSLVAFEGEEQFEKLCQESAKQAP 302
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVDPEELPENVLKP--KKKDGEYLVRFFGD-SEFAWVKPKDLKPFDEGDEFEYLKKKKKKKKK 77


                   ....*
gi 568933611   303 TKAEK 307
Cdd:pfam00855   78 KAFKK 82

SET_SUV39H_Clr4-like

cd20073

SET domain (including pre-SET and post-SET domains) found in of Schizosaccharomyces pombe H3K9 ...

1010-1203

8.03e-21

SET domain (including pre-SET and post-SET domains) found in of Schizosaccharomyces pombe H3K9 methyltransferase Clr4, and similar proteins; This subfamily contains fission yeast Schizosaccharomyces pombe H3K9 methyltransferase Clr4 (also known as Suv39h), the sole homolog of the mammalian SUV39H1 and SUV39H2 enzymes, that has a critical role in preventing aberrant heterochromatin formation. It is known to di- and tri-methylate Lys-9 of histone H3, a central heterochromatic histone modification, with its specificity profile most similar to that of the human SUV39H2 homolog.

Pssm-ID: 380999 [Multi-domain] Cd Length: 259 Bit Score: 93.79 E-value: 8.03e-21

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1010 DISEIPKCNCKPTDENPCGSDSE-----CLNRMLMFECHpQVCPAGEYCQNQCFTK-RQYPeTKIIKTDGKGWGLVAKRD 1083
Cdd:cd20073    35 DLNNPGSCQCLEDSNEKSFAYDEygrvrANTGSIIYECN-ENCDCGINCPNRVVQRgRKLP-LEIFKTKHKGWGLRCPRF 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1084 IRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRI-----IDAGPKGNYSRFMNHSCQPNCETLKWTVNG 1158
Cdd:cd20073   113 IKAGTFIGVYLGEVITQSEAEIRGKKYDNVGVTYLFDLDLFEDQVdeyytVDAQYCGDVTRFINHSCDPNLAIYSVLRDK 192

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611 1159 DTR----VGLFAVCDIPAGTELTFNY----NLDCLGNE-------------KTVCRCGASNCSGFL 1203
Cdd:cd20073   193 SDSkiydLAFFAIKDIPALEELTFDYsgrnNFDQLGFIgnrsnskyinlknKRPCYCGSANCRGWL 258

SET_EHMT

cd10543

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine ...

1011-1199

1.25e-20

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine N-methyltransferase EHMT1, EHMT2 and similar proteins; This family includes EHMT1 (also termed Eu-HMTase1, G9a-like protein 1, GLP, GLP1, histone H3-K9 methyltransferase 5, H3-K9-HMTase 5, lysine N-methyltransferase 1D, or KMT1D) and EHMT2 (also termed Eu-HMTase2, HLA-B-associated transcript 8, histone H3-K9 methyltransferase 3, H3-K9-HMTase 3, lysine N-methyltransferase 1C, KMT1C, or protein G9a), both act as histone-lysine N-methyltransferases that specifically mono- and dimethylate 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin.

Pssm-ID: 380941 [Multi-domain] Cd Length: 231 Bit Score: 92.40 E-value: 1.25e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1011 ISEIPKCNCK---PTDENPCGSDSEC---------------LNRMLMFECHPqVCPAGEYCQNQCFTKRQYPETKIIKTD 1072
Cdd:cd10543    21 ITSLQTCSCRddcSSDNCVCGRLSVRcwydkegrllpdfnkLDPPLIFECNR-ACSCWRNCRNRVVQNGIRYRLQLFRTR 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1073 GKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyahENDITHFYMLTIDKD-RIIDAGPKGNYSRFMNHSCQPNCET 1151
Cdd:cd10543   100 GMGWGVRALQDIPKGTFVCEYIGELISDSEADSR-----EDDSYLFDLDNKDGEtYCIDARRYGNISRFINHLCEPNLIP 174

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 568933611 1152 LKWTVNGDT----RVGLFAVCDIPAGTELTFNYN---LDCLGNEKTvCRCGASNC 1199
Cdd:cd10543   175 VRVFVEHQDlrfpRIAFFASRDIKAGEELGFDYGekfWRIKGKYFT-CRCGSPKC 228

SET_SETDB1

cd10517

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1) ...

1040-1203

2.09e-20

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1) and similar proteins; SETDB1 (EC 2.1.1.43; also termed ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes.

Pssm-ID: 380915 [Multi-domain] Cd Length: 288 Bit Score: 93.12 E-value: 2.09e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1040 FECHPQvCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEEC-----MARIKYAHEND 1114
Cdd:cd10517   106 YECNSR-CKCDKRCYNRVVQNGLQVRLQVFKTEKKGWGIRCLDDIPKGSFVCIYAGQILTEDEAneeglQYGDEYFAELD 184

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1115 ithfYMLTIDKDR------------IIDAGPKGNYSRFMNHSCQPNCETLKWTVNG-DTR---VGLFAVCDIPAGTELTF 1178
Cdd:cd10517   185 ----YIEVVEKLKegyesdveehcyIIDAKSEGNLGRYLNHSCSPNLFVQNVFVDThDLRfpwVAFFASRYIRAGTELTW 260

                         170       180
                  ....*....|....*....|....*..
gi 568933611 1179 NYN--LDCLGNEKTVCRCGASNCSGFL 1203
Cdd:cd10517   261 DYNyeVGSVPGKVLYCYCGSSNCRGRL 287

SET_SETD1B

cd19205

SET domain (including post-SET domain) found in SET domain-containing protein 1B (SETD1B) and ...

1076-1203

3.16e-20

SET domain (including post-SET domain) found in SET domain-containing protein 1B (SETD1B) and similar proteins; SETD1B (EC2.1.1.43), also termed lysine N-methyltransferase 2G, is a histone-lysine N-methyltransferase that specifically methylates 'Lys-4' of histone H3 (H3K4me) when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring 'Lys-9' residue is already methylated. Loss of SETD1B occurs in up to half the gastric and colorectal cancers, most commonly via SETD1B mutations, while de novo variants in SETD1B are associated with intellectual disability, epilepsy and autism.

Pssm-ID: 380982 [Multi-domain] Cd Length: 153 Bit Score: 88.96 E-value: 3.16e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1076 WGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWT 1155
Cdd:cd19205    26 WGLFAMEPIAADEMVIEYVGQNIRQVIADMREKRYEDEGIGSSYMFRVDHDTIIDATKCGNFARFINHSCNPNCYAKVIT 105

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611 1156 VNGDTRVGLFAVCDIPAGTELTFNYNLDcLGNEKTVCRCGASNCSGFL 1203
Cdd:cd19205   106 VESQKKIVIYSKQHINVNEEITYDYKFP-IEDVKIPCLCGSENCRGTL 152

SET_SUV39H1

cd10525

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 ...

1039-1203

1.04e-19

SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 homolog 1 (SUV39H1) and similar proteins; SUV39H1 (EC 2.1.1.43; also termed histone H3-K9 methyltransferase 1, H3-K9-HMTase 1, lysine N-methyltransferase 1A (KMT1A), position-effect variegation 3-9 homolog (SUV39H), or Su(var)3-9 homolog 1) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3) using monomethylated H3 'Lys-9' as substrate. It mainly functions in heterochromatin regions, thereby playing a central role in the establishment of constitutive heterochromatin at pericentric and telomere regions.

Pssm-ID: 380923 [Multi-domain] Cd Length: 255 Bit Score: 90.34 E-value: 1.04e-19

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1039 MFECHPQvCPAGEYCQNQCFTKRQYPETKIIKTD-GKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITH 1117
Cdd:cd10525    62 IYECNSR-CRCGPDCPNRVVQKGIQYDLCIFRTDnGRGWGVRTLEKIRKNSFVMEYVGEIITSEEAERRGQIYDRQGATY 140

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 FYMLT-IDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWTV-NGDT---RVGLFAVCDIPAGTELTFNYNL--DCLGNEKT 1190
Cdd:cd10525   141 LFDLDyVEDVYTVDAAYYGNISHFVNHSCDPNLQVYNVFIdNLDErlpRIALFATRTIRAGEELTFDYNMqvDPVDAEST 220

                         170       180       190
                  ....*....|....*....|....*....|....
gi 568933611 1191 V---------------------CRCGASNCSGFL 1203
Cdd:cd10525   221 KmdsnfglaglpgspkkrvrieCKCGVRSCRKYL 254

PHD1_NSD1_2

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; ...

670-712

1.17e-19

Pssm-ID: 277118 Cd Length: 43 Bit Score: 83.29 E-value: 1.17e-19

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  670 VCQLCEKTGSLLLCEGPCCGAFHLACLGLSRRPEGRFTCTECA 712
Cdd:cd15648     1 VCQVCEKPGELLLCEGQCCGAFHLDCIGLSEMPSGKFICDECI 43

PHD4_NSD3

cd15658

PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

834-873

1.51e-19

PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed histone-lysine N-methyltransferase NSD3, or protein whistle, or WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant-homeodomain (PHD) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the fourth PHD finger.

Pssm-ID: 277128 Cd Length: 40 Bit Score: 83.04 E-value: 1.51e-19

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMPDGSWFCNDC 873
Cdd:cd15658     1 FCFVCARGGRLLCCESCPASFHPECLSIEMPEGCWNCNEC 40

SET_EZH-like

cd19168

SET domain found in enhancer of zeste homolog 1 (EZH1) and zeste homolog 2 (EZH2) of polycomb ...

1075-1180

5.46e-19

SET domain found in enhancer of zeste homolog 1 (EZH1) and zeste homolog 2 (EZH2) of polycomb repressive complex 2 (PRC2), and similar proteins; The family includes EZH1 and EZH2. EZH1 (EC 2.1.1.43; also termed ENX-2, or histone-lysine N-methyltransferase EZH1) is a catalytic subunit of the PRC2/EED-EZH1 complex, which methylates 'Lys-27' of histone H3, leading to transcriptional repression of the affected target gene. EZH2 (EC 2.1.1.43; also termed lysine N-methyltransferase 6, ENX-1, or histone-lysine N-methyltransferase EZH2) is a catalytic subunit of the PRC2/EED-EZH2 complex, which methylates 'Lys-9' (H3K9me) and 'Lys-27' (H3K27me) of histone H3, leading to transcriptional repression of the affected target gene. Both EZH1 and EZH2 can mono-, di- and trimethylate 'Lys-27' of histone H3 to form H3K27me1, H3K27me2 and H3K27me3, respectively. PRC2 is involved in several cancers; EZH2 is overexpressed in breast, liver and prostate cancer, while point mutations in EZH2 alter the substrate preference and product specificity of PRC2 in Non-Hodgkin lymphomas (NHLs). Thus, PRC2 is a popular target for cancer therapeutics.

Pssm-ID: 380945 Cd Length: 124 Bit Score: 84.16 E-value: 5.46e-19

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyAHENDITHF-YMLTIDKDRIIDAGPKGNYSRFMNHSCQP----NC 1149
Cdd:cd19168    13 GLGLFAAEDIKEGEFVIEYTGELISHDEGVRR---EHRRGDVSYlYLFEEQEGIWVDAAIYGNLSRYINHATDKvktgNC 89

                          90       100       110
                  ....*....|....*....|....*....|.
gi 568933611 1150 ETLKWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd19168    90 MPKIMYVNHEWRIKFTAIKDIKIGEELFFNY 120

SET_EHMT1

cd10535

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine ...

1038-1199

1.26e-18

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine N-methyltransferase 1 (EHMT1) and similar proteins; EHMT1 (also termed Eu-HMTase1, G9a-like protein 1, GLP, GLP1, histone H3-K9 methyltransferase 5, H3-K9-HMTase 5, or lysine N-methyltransferase 1D (KMT1D)) acts as a histone-lysine N-methyltransferase that specifically mono- and dimethylates 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin.

Pssm-ID: 380933 [Multi-domain] Cd Length: 231 Bit Score: 86.53 E-value: 1.26e-18

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1038 LMFECHpQVCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyahENDIth 1117
Cdd:cd10535    66 LIFECN-HACSCWRNCRNRVVQNGLRARLQLYRTRDMGWGVRSLQDIPPGTFVCEYVGELISDSEADVR-----EEDS-- 137

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 fYMLTID-KDR---IIDAGPKGNYSRFMNHSCQPNCETLKWTVNGDT----RVGLFAVCDIPAGTELTFNYN---LDCLG 1186
Cdd:cd10535   138 -YLFDLDnKDGevyCIDARFYGNVSRFINHHCEPNLVPVRVFMAHQDlrfpRIAFFSTRLIEAGEQLGFDYGerfWDIKG 216

                         170
                  ....*....|...
gi 568933611 1187 NEKTvCRCGASNC 1199
Cdd:cd10535   217 KLFS-CRCGSPKC 228

SET_SETD1A

cd19204

SET domain (including post-SET domain) found in SET domain-containing protein 1A (SETD1A) and ...

1076-1203

1.26e-18

SET domain (including post-SET domain) found in SET domain-containing protein 1A (SETD1A) and similar proteins; SETD1A (EC2.1.1.43), also termed lysine N-methyltransferase 2F, or Set1/Ash2 histone methyltransferase complex subunit SET1, is a histone-lysine N-methyltransferase that specifically methylates 'Lys-4' of histone H3 (H3K4me), when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring 'Lys-9' residue is already methylated. Human SET domain containing protein 1A (hSETD1A) expression occurs at a high rate in hepatocellular carcinoma patients and controls tumor metastasis in breast cancer by activating MMP expression.

Pssm-ID: 380981 [Multi-domain] Cd Length: 153 Bit Score: 84.31 E-value: 1.26e-18

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1076 WGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWT 1155
Cdd:cd19204    26 WGLFAMEPIAADEMVIEYVGQNIRQVVADMREKRYVQEGIGSSYLFRVDHDTIIDATKCGNLARFINHCCTPNCYAKVIT 105

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611 1156 VNGDTRVGLFAVCDIPAGTELTFNYNLDcLGNEKTVCRCGASNCSGFL 1203
Cdd:cd19204   106 IESQKKIVIYSKQPIGVNEEITYDYKFP-IEDNKIPCLCGTENCRGTL 152

PHD5_NSD3

cd15661

PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

1243-1284

2.80e-18

PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed histone-lysine N-methyltransferase NSD3, or protein whistle, or WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant-homeodomain (PHD) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the fifth PHD finger.

Pssm-ID: 277131 Cd Length: 43 Bit Score: 79.24 E-value: 2.80e-18

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1243 CFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15661     2 CFQCGDGGELVMCDKKDCPKAYHLLCLNLTQPPYGKWECPWH 43

PHD4_NSD

cd15567

PHD finger 4 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

834-873

4.88e-18

PHD finger 4 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein is a family of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising to help suppress cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they play non-redundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). This model corresponds to the fourth PHD finger.

Pssm-ID: 277042 [Multi-domain] Cd Length: 41 Bit Score: 78.44 E-value: 4.88e-18

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIE-MPDGSWFCNDC 873
Cdd:cd15567     1 WCFICSEGGSLICCESCPASFHPECLGLEpPPEGKFYCEDC 41

SET_KMT2D

cd19209

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2D (KMT2D) ...

1074-1203

6.99e-18

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2D (KMT2D) and similar proteins; KMT2D (EC2.1.1.43; also termed lysine N-methyltransferase 2D, ALL1-related protein (ALR), or myeloid/lymphoid or mixed-lineage leukemia protein 2 (MLL2)), acts as histone methyltransferase that methylates 'Lys-4' of histone H3 (H3K4me). It is a coactivator for estrogen receptor by being recruited by ESR1, thereby activating transcription. KMT2D is a subunit of MLL2/3 complex, a coactivator complex of nuclear receptors, involved in transcriptional coactivation.

Pssm-ID: 380986 [Multi-domain] Cd Length: 155 Bit Score: 82.05 E-value: 6.99e-18

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1074 KGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDiTHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLK 1153
Cdd:cd19209    26 QGLGLYAAKDLEKHTMVIEYIGTIIRNEVANRREKIYEEQN-RGIYMFRINNEHVIDATLTGGPARYINHSCAPNCVAEV 104

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568933611 1154 WTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTV-CRCGASNCSGFL 1203
Cdd:cd19209   105 VTFDKEDKIIIISSRRIPKGEELTYDYQFDFEDDQHKIpCHCGAWNCRKWM 155

SET_KMT2C

cd19208

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2C (KMT2C) ...

1074-1203

1.56e-17

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2C (KMT2C) and similar proteins; KMT2C (EC2.1.1.43; also termed lysine N-methyltransferase 2C, homologous to ALR protein (HALR) myeloid/lymphoid, or mixed-lineage leukemia protein 3 (MLL3)), acts as a histone methyltransferase that methylates 'Lys-4' of histone H3 (H3K4me) and may be involved in leukemogenesis and developmental disorder. KMT2C is a catalytic subunit of MLL2/3 complex, a coactivator complex of nuclear receptors, involved in transcriptional coactivation. Overexpression of KMT2C is associated with estrogen receptor-positive breast cancer; KMT2C mediates the estrogen dependence of breast cancer through regulation of estrogen receptor alpha (ERalpha) enhancer function. KMT2C is frequently mutated in certain populations with diffuse-type gastric adenocarcinomas (DGA); its loss promotes epithelial-to-mesenchymal transition (EMT) and is associated with worse overall survival.

Pssm-ID: 380985 [Multi-domain] Cd Length: 154 Bit Score: 81.21 E-value: 1.56e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1074 KGWGLVAKRDIRKGEFVNEYVGELIdEEECMARIKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLK 1153
Cdd:cd19208    25 QGLGLYAARDIEKHTMVIEYIGTII-RNEVANRKEKLYESQNRGVYMFRIDNDHVIDATLTGGPARYINHSCAPNCVAEV 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568933611 1154 WTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNE-KTVCRCGASNCSGFL 1203
Cdd:cd19208   104 VTFEKGHKIIISSSRRIQKGEELCYDYKFDFEDDQhKIPCHCGAVNCRKWM 154

PHD4_NSD1

cd15656

PHD finger 4 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, ...

834-873

1.67e-17

PHD finger 4 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, also termed H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, or androgen receptor coactivator 267 kDa protein, or androgen receptor-associated protein of 267 kDa, or H3-K36-HMTase H4-K20-HMTase, or Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the fourth PHD finger.

Pssm-ID: 277126 Cd Length: 40 Bit Score: 76.98 E-value: 1.67e-17

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMPDGSWFCNDC 873
Cdd:cd15656     1 WCFVCSEGGSLLCCESCPAAFHRECLNIDMPEGSWYCNDC 40

SET

cd08161

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, ...

1067-1181

1.71e-17

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, Enhancer-of-zeste, Trithorax (SET) domain superfamily corresponds to SET domain-containing lysine methyltransferases, which catalyze site and state-specific methylation of lysine residues in histones that are fundamental in epigenetic regulation of gene activation and silencing in eukaryotic organisms. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains has been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as N-SET and C-SET. C-SET forms an unusual and conserved knot-like structure of probable functional importance. In addition to N-SET and C-SET, an insert region (I-SET) and flanking regions of high structural variability form part of the overall structure. Some family members contain a pre-SET domain, which is found in a number of histone methyltransferases (HMTase), and a post-SET domain, which harbors a zinc-binding site.

Pssm-ID: 380914 [Multi-domain] Cd Length: 72 Bit Score: 78.06 E-value: 1.71e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1067 KIIKTDGKGWGLVAKRDIRKGEFvneyvgelideeecmarikyahendithfymltidkdrIIDAgpkgnysRFMNHSCQ 1146
Cdd:cd08161     3 RPSTIPGAGFGLFATRDIPKGEV--------------------------------------IGLA-------RFINHSCE 37

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 568933611 1147 PNCETLKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:cd08161    38 PNCEFEEVYVGGKPRVFIVALRDIKAGEELTVDYG 72

PWWP

cd05162

PWWP (Pro-Trp-Trp-Pro) domain; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, ...

883-968

2.23e-17

PWWP (Pro-Trp-Trp-Pro) domain; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids and is composed of a five-stranded antiparallel beta-barrel followed by a helical region. It is found in numerous proteins that are involved in cell division, growth, and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. PWWP domains specifically recognize DNA and histone methylated lysines at the level of the nucleosome. Based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.

Pssm-ID: 438958 [Multi-domain] Cd Length: 86 Bit Score: 78.31 E-value: 2.23e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEiGEFPVFFFGSKDYYWTHQARVFPYmEGDRGSRYQGVRGIGRVFKNA 962
Cdd:cd05162     2 DLVWAKLKGYPWWPARVVDPEELPEEVGKKKKK-GGVLVQFFGDNDYAWVKSKNIKPF-EEGFKKEFKKKKKKSKKFKKA 79


                  ....*.
gi 568933611  963 LQEAEA 968
Cdd:cd05162    80 VEEAEE 85

SET_EHMT2

cd10533

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine ...

1038-1199

2.26e-17

SET domain (including pre-SET and post-SET domains) found in euchromatic histone-lysine N-methyltransferase 2 (EHMT2) and similar proteins; EHMT2 (also termed Eu-HMTase2, HLA-B-associated transcript 8, histone H3-K9 methyltransferase 3, H3-K9-HMTase 3, lysine N-methyltransferase 1C (KMT1C), or protein G9a) acts as a histone-lysine N-methyltransferase that specifically mono- and dimethylates 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin.

Pssm-ID: 380931 [Multi-domain] Cd Length: 239 Bit Score: 83.14 E-value: 2.26e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1038 LMFECHpQVCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARikyahENDITH 1117
Cdd:cd10533    66 LIFECN-QACSCWRNCKNRVVQSGIKVRLQLYRTAKMGWGVRALQTIPQGTFICEYVGELISDAEADVR-----EDDSYL 139

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 FYMLTIDKD-RIIDAGPKGNYSRFMNHSCQPNCETLK-WTVNGD---TRVGLFAVCDIPAGTELTFNYNlDCLGNEKT-- 1190
Cdd:cd10533   140 FDLDNKDGEvYCIDARYYGNISRFINHLCDPNIIPVRvFMLHQDlrfPRIAFFSSRDIRTGEELGFDYG-DRFWDIKSky 218

                         170
                  ....*....|
gi 568933611 1191 -VCRCGASNC 1199
Cdd:cd10533   219 fTCQCGSEKC 228

SET_AtSUVH-like

cd10545

SET domain found in Arabidopsis thaliana histone H3-K9 methyltransferases (SUVHs) and similar ...

1038-1181

2.99e-17

SET domain found in Arabidopsis thaliana histone H3-K9 methyltransferases (SUVHs) and similar proteins; Arabidopsis thaliana SUVH protein (also termed suppressor of variegation 3-9 homolog protein) is a histone-lysine N-methyltransferase that methylates 'Lys-9' of histone H3. H3 'Lys-9' methylation represents a specific tag for epigenetic transcriptional repression. Some family members contain a post-SET domain which binds a Zn2+ ion. Most family members, except for Arabidopsis thaliana SUVH9, contain a post-SET domain which harbors a zinc-binding site.

Pssm-ID: 380943 [Multi-domain] Cd Length: 232 Bit Score: 82.45 E-value: 2.99e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1038 LMFECHPQvCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKyaheNDITH 1117
Cdd:cd10545    61 AIYECGPL-CKCPPSCYNRVTQKGLRYRLEVFKTAERGWGVRSWDSIPAGSFICEYVGELLDTSEADTRSG----NDDYL 135

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1118 FYML----------------------------TIDKDRIIDAGPKGNYSRFMNHSCQPNcetLKWT-VNGDT------RV 1162
Cdd:cd10545   136 FDIDnrqtnrgwdggqrldvgmsdgerssaedEESSEFTIDAGSFGNVARFINHSCSPN---LFVQcVLYDHndlrlpRV 212

                         170
                  ....*....|....*....
gi 568933611 1163 GLFAVCDIPAGTELTFNYN 1181
Cdd:cd10545   213 MLFAADNIPPLQELTYDYG 231

PWWP

cd05162

PWWP (Pro-Trp-Trp-Pro) domain; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, ...

223-305

7.45e-17

Pssm-ID: 438958 [Multi-domain] Cd Length: 86 Bit Score: 76.77 E-value: 7.45e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  223 GDLVWSKVSGYPWWPCMVSADPLLHNHTKLKGQKKsarQYHVQFFGDApERAWIFEKSLVAFEGEEQFEKLCQESAKQAP 302
Cdd:cd05162     1 GDLVWAKLKGYPWWPARVVDPEELPEEVGKKKKKG---GVLVQFFGDN-DYAWVKSKNIKPFEEGFKKEFKKKKKKSKKF 76


                  ...
gi 568933611  303 TKA 305
Cdd:cd05162    77 KKA 79

PHD1_NSD

cd15564

PHD finger 1 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

670-711

1.87e-16

PHD finger 1 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein is a family of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising to help suppress cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they non-redundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). This model corresponds to the first PHD finger.

Pssm-ID: 277039 Cd Length: 43 Bit Score: 74.29 E-value: 1.87e-16

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  670 VCQLCEKTGSLLLCEGPCCGAFHLACLGLSRRPEGRFTCTEC 711
Cdd:cd15564     1 VCQICEKPGKLLTCEGPCCGHFHLDCLGLSEQPDEPFKCDEC 42

SET_KMT2B

cd19207

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2B (KMT2B) ...

1075-1203

4.68e-16

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 2B (KMT2B) and similar proteins; KMT2B (EC2.1.1.43; also termed lysine N-methyltransferase 2B, myeloid/lymphoid or mixed-lineage leukemia protein 4 (MLL2/MLL4), trithorax homolog 2 (TRX2), or WW domain-binding protein 7 (WBP-7)), acts as a histone methyltransferase that methylates 'Lys-4' of histone H3 (H3K4me). It is required during the transcriptionally active period of oocyte growth for the establishment and/or maintenance of bulk H3K4 trimethylation (H3K4me3), global transcriptional silencing that precedes resumption of meiosis, oocyte survival and normal zygotic genome activation.

Pssm-ID: 380984 [Multi-domain] Cd Length: 154 Bit Score: 76.99 E-value: 4.68e-16

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDIThFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd19207    25 GRGLFCKRNIDAGEMVIEYSGIVIRSVLTDKREKFYDSKGIG-CYMFRIDDFDVVDATMHGNAARFINHSCEPNCYSRVI 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 568933611 1155 TVNGDTRVGLFAVCDIPAGTELTFNYNLDCL-GNEKTVCRCGASNCSGFL 1203
Cdd:cd19207   104 HVEGQKHIVIFALRKIYRGEELTYDYKFPIEdASNKLPCNCGAKRCRRFL 153

SET_SETD5-like

cd10529

SET domain found in SET domain-containing protein 5 (SETD5), inactive histone-lysine ...

1077-1184

5.45e-16

SET domain found in SET domain-containing protein 5 (SETD5), inactive histone-lysine N-methyltransferase 2E (KMT2E) and similar proteins; SETD5 is a probable transcriptional regulator that acts via the formation of large multiprotein complexes that modify and/or remodel the chromatin. KMT2E (also termed inactive lysine N-methyltransferase 2E or myeloid/lymphoid or mixed-lineage leukemia protein 5 (MLL5)) associates with chromatin regions downstream of transcriptional start sites of active genes and thus regulates gene transcription. The family also includes Saccharomyces cerevisiae SET domain-containing proteins, SET3 and SET4, and Schizosaccharomyces pombe SET3. Most of these family members contain a post-SET domain which harbors a zinc-binding site.

Pssm-ID: 380927 Cd Length: 127 Bit Score: 75.77 E-value: 5.45e-16

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1077 GLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAhENDITH--FYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKW 1154
Cdd:cd10529    18 GLVATEDISPGEPILEYKGEVSLRSEFKEDNGFF-KRPSPFvfFYDGFEGLPLCVDARKYGNEARFIRRSCRPNAELRHV 96

                          90       100       110
                  ....*....|....*....|....*....|.
gi 568933611 1155 TVNGDT-RVGLFAVCDIPAGTELTFNYNLDC 1184
Cdd:cd10529    97 VVSNGElRLFIFALKDIRKGTEITIPFDYDY 127

PHD2_NSD1

cd15650

PHD finger 2 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, ...

717-763

5.69e-16

PHD finger 2 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, also termed H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, or androgen receptor coactivator 267 kDa protein, or androgen receptor-associated protein of 267 kDa, or H3-K36-HMTase H4-K20-HMTase, or LysineN-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the second PHD finger.

Pssm-ID: 277120 Cd Length: 47 Bit Score: 73.00 E-value: 5.69e-16

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  717 SCFVCKESKMEVKRCVVNQCGKFYHEACVKKYPLTVFESRGFRCPLH 763
Cdd:cd15650     1 TCFVCKKSDEDVRRCMLPLCGKFYHEECVLKYPPTVMQNRGFRCSLH 47

PHD5_NSD1

cd15659

PHD finger 5 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, ...

1242-1284

1.21e-15

PHD finger 5 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, also termed H3 Lysine-36 and H4 Lysine-20 specific histone-lysine N-methyltransferase, or androgen receptor coactivator 267 kDa protein, or androgen receptor-associated protein of 267 kDa, or H3-K36-HMTase H4-K20-HMTase, or Lysine N-methyltransferase 3B (KMT3B), or NR-binding SET domain-containing protein, is a lysine methyltransferase that preferentially methylates H3 on Lysine36 (H3-K36) and H4 on Lysine20 (H4-K20), which is primarily associated with active transcription. It plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma and glioblastoma formation. It can alter transcription by interacting with the protein NSD1-interacting zinc finger protein 1 (NIZP1). It also mitigates caspase-1 activation by listeriolysin o (LLO) in macrophages, and requires functional LLO for the regulation of IL-1beta secretion. Moreover, NSD1 regulates RNA polymerase II (RNAP II) recruitment to bone morphogenetic protein 4 (BMP4). NSD1 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the fifth PHD finger.

Pssm-ID: 277129 Cd Length: 43 Bit Score: 71.90 E-value: 1.21e-15

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1242 ECFRCGDGGQLVLCDRKFCTKAYHLSCLGLGKRPFGKWECPWH 1284
Cdd:cd15659     1 ECFSCGDGGQLVSCKKPGCPKVYHADCLNLTKRPAGKWECPWH 43

PHD2_NSD3

cd15652

PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

717-763

2.56e-15

PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed histone-lysine N-methyltransferase NSD3, or protein whistle, or WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant homeodomain (PHD) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the second PHD finger.

Pssm-ID: 277122 Cd Length: 47 Bit Score: 71.05 E-value: 2.56e-15

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  717 SCFVCKESKMEVKRCVVNQCGKFYHEACVKKYPLTVFESRGFRCPLH 763
Cdd:cd15652     1 PCFSCKVPGKDVKRCSVNACGRFYHEACVRKYTTSAFESKGFRCPQH 47

C5HCH

pfam17982

NSD Cys-His rich domain; This is an NSD-specific Cys-His rich region (C5HCH) domain. Family ...

1283-1328

6.25e-15

Pssm-ID: 465605 Cd Length: 50 Bit Score: 70.19 E-value: 6.25e-15

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 568933611  1283 WHHCDVCGKPSTSFCHLCPNSFCKEHQDGTAFRSTQDGQSYCCEHD 1328
Cdd:pfam17982    1 WHQCSVCGSPATSFCEFCPSSFCKDHEKGALVPSALEGRLCCSEHD 46

SET_SETDB

cd10541

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1), ...

1039-1203

1.08e-14

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 1 (SETDB1), SET domain bifurcated 2 (SETDB2), and similar proteins; SETDB1 (EC 2.1.1.43; also termed ERG-associated protein with SET domain (ESET), histone H3-K9 methyltransferase 4, H3-K9-HMTase 4, or lysine N-methyltransferase 1E (KMT1E)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. SETDB2 (EC 2.1.1.43; also termed chronic lymphocytic leukemia deletion region gene 8 protein (CLLD8), or lysine N-methyltransferase 1F (KMT1F)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It is involved in left-right axis specification in early development and mitosis.

Pssm-ID: 380939 [Multi-domain] Cd Length: 236 Bit Score: 75.27 E-value: 1.08e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1039 MFECHPQVCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELIDEEecmarikYAHENDITHF 1118
Cdd:cd10541    67 VYECNKLCKCDPNMCQNRLVQHGLQVRLQLFKTQNKGWGIRCLDDIAKGTFVCIYAGKILTDD-------FADKEGLEMG 139

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1119 YMLTIDKDRI------IDAGPKGNYSRFMNHSCQPNCETLKWTVNGDTR----VGLFAVCDIPAGTELTFNYNLDC--LG 1186
Cdd:cd10541   140 DEYFANLDHIeescyiIDAKLEGNLGRYLNHSCSPNLFVQNVFVDTHDLrfpwVAFFASKRIKAGTELTWDYNYEVgsVE 219

                         170
                  ....*....|....*..
gi 568933611 1187 NEKTVCRCGASNCSGFL 1203
Cdd:cd10541   220 GKELLCCCGSNECRGRL 236

PHD2_NSD

cd15565

PHD finger 2 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

717-763

1.58e-14

PHD finger 2 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein is a family of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising to help suppress cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they play non-redundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). This model corresponds to the second PHD finger.

Pssm-ID: 277040 Cd Length: 51 Bit Score: 68.99 E-value: 1.58e-14

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568933611  717 SCFVCKES---KMEVKRCVVNQCGKFYHEACVKKYPLT-VFESRGFRCPLH 763
Cdd:cd15565     1 SCFVCKKLgsvGGEVFKCSVASCGKFYHEECLKKWPLTtISDSKKFRCPLH 51

SET_SETDB2

cd10523

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 2 (SETDB2) ...

1039-1203

1.14e-13

SET domain (including pre-SET and post-SET domains) found in SET domain bifurcated 2 (SETDB2) and similar proteins; SETDB2 (EC 2.1.1.43; also termed chronic lymphocytic leukemia deletion region gene 8 protein (CLLD8), or lysine N-methyltransferase 1F (KMT1F)) acts as a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). It is involved in left-right axis specification in early development and mitosis.

Pssm-ID: 380921 [Multi-domain] Cd Length: 266 Bit Score: 72.94 E-value: 1.14e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1039 MFECHPQVCPAGEYCQNQCFTKRQYPETKIIKTDGKGWGLVAKRDIRKGEFVNEYVGELI----DEEECMARIKYA---H 1111
Cdd:cd10523    83 LYECNVSCKCNRMLCQNRVVQHGLQVRLQVFKTEKKGWGVRCLDDIDKGTFVCIYAGRVLsrarSPTEPLPPKLELpseN 162

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1112 ENDITHFYMLTIDKDR------IIDAGPKGNYSRFMNHSCQPNCETLKWTVNGDTR----VGLFAVCDIPAGTELTFNYN 1181
Cdd:cd10523   163 EVEVVTSWLILSKKRKlrenvcFLDASKEGNVGRFLNHSCCPNLFVQNVFVDTHDKnfpwVAFFTNRVVKAGTELTWDYS 242

                         170       180
                  ....*....|....*....|....
gi 568933611 1182 LDC-LGNEKTV-CRCGASNCSGFL 1203
Cdd:cd10523   243 YDAgTSPEQEIpCLCGVNKCQKKI 266

AWS

smart00570

associated with SET domains; subdomain of PRESET

1013-1063

1.58e-13

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 66.27 E-value: 1.58e-13

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 568933611   1013 EIPKCNCKPT--DENPCGSDseCLNRMLMFEChPQVCPAGEYCQNQCFTKRQY 1063
Cdd:smart00570    1 DIMTCECKPTddDETACGSD--CLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

PWWP_ZCWPW2

cd20146

PWWP domain found in zinc finger CW-type PWWP domain protein 2 (ZCWPW2) and similar proteins; ...

222-340

2.78e-13

PWWP domain found in zinc finger CW-type PWWP domain protein 2 (ZCWPW2) and similar proteins; ZCWPW2 is a histone H3K4me3 reader. In addition to the PWWP domain, ZCWPW2 contains a zinc finger CW (zf-CW) domain that is a histone modification reader for the histone H3 tail with trimethylated K4. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438974 Cd Length: 113 Bit Score: 67.32 E-value: 2.78e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  222 VGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKGQkKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFEKLCQESAKqa 301
Cdd:cd20146    11 LGSLVWAKMTGYPRWPAILTPDPICGEYVDYDED-GEVEKYHVEFLGKPHSHAWISAKSVEPYNSNTKTPKCKTKKSK-- 87

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 568933611  302 ptkaekiKLLKPISGrlrAQWEmgivqAEEAASMSIEER 340
Cdd:cd20146    88 -------KRKKSYES---ALEE-----AERLLKLTCEER 111

PHD3_NSD

cd15566

PHD finger 3 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

764-817

1.94e-12

PHD finger 3 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The nuclear receptor binding SET domain (NSD) protein is a family of three HMTases, NSD1, NSD2/MMSET/WHSC1, and NSD3/WHSC1L1, that are critical in maintaining chromatin integrity. Reducing NSD activity through specific lysine-HMTase inhibitors appears promising to help suppress cancer growth. NSD proteins have specific mono- and dimethylase activities for H3K36, and they play non-redundant roles during development. NSD1 plays a role in several pathologies, including but not limited to Sotos and Weaver syndromes, acute myeloid leukemia, breast cancer, neuroblastoma, and glioblastoma formation. NSD2 is involved in cancer cell proliferation, survival, and tumor growth, by mediating constitutive NF-kappaB signaling via the cytokine autocrine loop. NSD3 is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD proteins contain a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-proline (PWWP) domains, five plant homeodomain (PHD) fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). This model corresponds to the third PHD finger.

Pssm-ID: 277041 Cd Length: 48 Bit Score: 62.83 E-value: 1.94e-12

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  764 SCMSCHASNPSnprpSKGKMMRCVRCPVAYHGGdaCLAAGCSVIASNSIICTGH 817
Cdd:cd15566     1 TCATCEASGDG----SSGKLVRCIRCPRAYHAG--CIPAGSKLLNKKLIICPKH 48

PWWP

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

220-282

2.05e-12

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 63.52 E-value: 2.05e-12

                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568933611    220 YNVGDLVWSKVSGYPWWPCMVSADPLLhnHTKLKGQKKSARQYHVQFFGDaPERAWIFEKSLV 282
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKMT--PDNIMKRKSDENLYPVLFFGD-KDTAWIPSSKLF 60

AWS

pfam17907

AWS domain; This entry represents the AWS (associated with SET domain) domain. This is a zinc ...

1023-1061

2.71e-12

Pssm-ID: 465559 Cd Length: 39 Bit Score: 62.44 E-value: 2.71e-12

                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 568933611  1023 DENPCGSDSECLNRMLMFECHPQVCPAGEYCQNQCFTKR 1061
Cdd:pfam17907    1 DDPPCGCGSDCINRMLFVECTPKTCPCGESCQNQRFQRK 39

PWWP_AtATX3-like

cd20143

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like ...

883-969

3.97e-12

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like protein ATX3, ATX4, ATX5, and similar proteins; The family includes A. thaliana ATX3 (also called protein SET domain group 14, or trithorax-homolog protein 3), ATX4 (also called protein SET domain group 16, or trithorax-homolog protein 4) and ATX5 (also called protein SET domain group 29, or trithorax-homolog protein 5), which belong to the histone-lysine methyltransferase family. They show distinct phylogenetic origins from the family of ATX1 and ATX2. They are multi-domain containing protein that consists of an N-terminal PWWP domain, a canonical plant homeodomain (PHD) domain, a non-canonical extended PHD (ePHD) domain, and a C-terminal SET domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438971 [Multi-domain] Cd Length: 100 Bit Score: 63.93 E-value: 3.97e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVCHPKNVPPNIQKmKHEIGEFPVFFFG---SKDYYWTHQARVFPYMEGDrgSRYQGVRGIGRVF 959
Cdd:cd20143     4 DLVWAKVGTHPFWPARVVEPAEQAEEVRR-RCVPGSLCVYFFGpggSRDYGWVRRSMIFPFTDDL--ARFQTQKIKNKKR 80

                          90
                  ....*....|..
gi 568933611  960 KNALQEA--EAR 969
Cdd:cd20143    81 PQEFQEAleEAK 92

SET_SMYD

cd20071

SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing ...

1067-1180

4.86e-12

SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing protein, and similar proteins; The family includes SET and MYND domain-containing proteins, SMYD1-SYMD5. SMYD1 (EC 2.1.1.43; also termed BOP) is a heart and muscle specific SET-MYND domain containing protein, which functions as a histone methyltransferase and regulates downstream gene transcription. It methylates histone H3 at 'Lys-4' (H3K4me), seems able to perform both mono-, di-, and trimethylation. SMYD2 (also termed HSKM-B, or lysine N-methyltransferase 3C (KMT3C)) functions as a histone methyltransferase that methylates both histones and non-histone proteins, including p53/TP53 and RB1. It specifically methylates histone H3 'Lys-4' (H3K4me) and dimethylates histone H3 'Lys-36' (H3K36me2). SMYD3 (also termed zinc finger MYND domain-containing protein 1) functions as a histone methyltransferase that specifically methylates 'Lys-4' of histone H3, inducing di- and tri-methylation, but not monomethylation. It also methylates 'Lys-5' of histone H4. SMYD3 plays an important role in transcriptional activation as a member of an RNA polymerase complex. SMYD4 functions as a potential tumor suppressor that plays a critical role in breast carcinogenesis at least partly through inhibiting the expression of PDGFR-alpha. SMYD5 (also termed protein NN8-4AG, or retinoic acid-induced protein 15) functions as histone lysine methyltransferase that mediates H4K20me3 at heterochromatin regions.

Pssm-ID: 380997 [Multi-domain] Cd Length: 122 Bit Score: 64.32 E-value: 4.86e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1067 KIIKTDG-KGWGLVAKRDIRKGEfvneyvgELIDEEECMArikyAHENDITHFymltiDKDRIIDAG--PKGNysrFMNH 1143
Cdd:cd20071     1 EVRESEGsKGRGLVATRDIEPGE-------LILVEKPLVS----VPSNSFSLT-----DGLNEIGVGlfPLAS---LLNH 61

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 568933611 1144 SCQPNCEtlkWTVNGDTRVGLFAVCDIPAGTELTFNY 1180
Cdd:cd20071    62 SCDPNAV---VVFDGNGTLRVRALRDIKAGEELTISY 95

PHD3_NSD3

cd15655

PHD finger 3 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

777-817

7.64e-12

PHD finger 3 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed histone-lysine N-methyltransferase NSD3, or protein whistle, or WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant homeodomain (PHD) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the third PHD finger.

Pssm-ID: 277125 Cd Length: 53 Bit Score: 61.44 E-value: 7.64e-12

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  777 RPSKGKMMRCVRCPVAYHGGDACLAAGCSVIASNSIICTGH 817
Cdd:cd15655    13 KASKGRMMRCLRCPVAYHTGDGCVAAGSVLVTPHIIICSNH 53

PHD1_NSD3

cd15649

PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

670-711

2.28e-11

PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed histone-lysine N-methyltransferase NSD3, or protein whistle, or WHSC1-like 1 isoform 9 with methyltransferase activity to lysine, or Wolf-Hirschhorn syndrome candidate 1-like protein 1 (WHSC1-like protein 1, or WHSC1L1), is a lysine methyltransferase encoded by gene NSD3, which is amplified in human breast cancer cell lines. Moreover, translocation resulting in NUP98 fusion to NSD3 leads to the development of acute myeloid leukemia. NSD3 contains a catalytic suppressor of variegation, enhancer of zeste and trithorax (SET) domain, two proline-tryptophan-tryptophan-prolin motif (PWWP) domains, five plant-homeodomain (PHD) zinc fingers, and an NSD-specific Cys-His rich domain (Cys5HisCysHis). The SET domain is responsible for histone methyltransferase activity. The PWWP and PHD fingers are involved in protein-protein interactions. This model corresponds to the first PHD finger.

Pssm-ID: 277119 Cd Length: 44 Bit Score: 59.78 E-value: 2.28e-11

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  670 VCQLCEKTG-SLLLCEGPCCGAFHLACLGLSRRPEGRFTCTEC 711
Cdd:cd15649     1 VCQVCESFGeSLVTCEGECCGLFHLECLGLTSLPDEKFICQEC 43

PHD2_CHD_II

cd15532

PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD ...

835-873

4.76e-11

PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD proteins includes chromodomain-helicase-DNA-binding protein CHD3, CHD4, and CHD5, which are nuclear and ubiquitously expressed chromatin remodelling ATPases generally associated with histone deacetylases (HDACs). They are involved in DNA Double Strand Break (DSB) signaling, DSB repair and/or p53-dependent pathways such as apoptosis and senescence, as well as in the maintenance of genomic stability, and/or cancer prevention. They function as subunits of the Nucleosome Remodelling and Deacetylase (NuRD) complex, which is generally associated with gene repression, heterochromatin formation, and overall chromatin compaction. In contrast to the class I CHD enzymes (CHD1 and CHD2), class II CHD proteins lack identifiable DNA-binding domains, but possess a C-terminal coiled-coil region. Moreover, in addition to the tandem chromodomains and a helicase domain, they all harbor tandem plant homeodomain (PHD) zinc fingers involved in the recognition of methylated histone tails. This model corresponds to the second PHD finger.

Pssm-ID: 277007 [Multi-domain] Cd Length: 43 Bit Score: 58.83 E-value: 4.76e-11

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15532     2 CRVCKDGGELLCCDGCPSSYHLHCLNpplAEIPDGDWFCPRC 43

SET_SpSET3-like

cd19183

SET domain (including post-SET domain) found in Schizosaccharomyces pombe SET ...

1077-1183

2.39e-10

SET domain (including post-SET domain) found in Schizosaccharomyces pombe SET domain-containing protein 3 (SETD3) and similar proteins; Schizosaccharomyces pombe SETD3 functions as a transcriptional regulator that acts via the formation of large multiprotein complexes that modify and/or remodel the chromatin. It is required for both, gene activation and repression.

Pssm-ID: 380960 Cd Length: 173 Bit Score: 60.88 E-value: 2.39e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1077 GLVAKRDIRKGEFVNEYVGELIDEEECMArikyaheNDITHFYMLTIDKDRI---------IDAGPKGNYSRFMNHSCQP 1147
Cdd:cd19183    15 GLFADRPIPAGDPIQELLGEIGLQSEYIA-------DPENQYQILGAPKPHVffhpqsplyIDTRRSGSVARFIRRSCRP 87

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 568933611 1148 NCE--TLKWTVNGDTRVGLFAVCDIPAGTELTFNYNLD 1183
Cdd:cd19183    88 NAElvTVASDSGSVLKFVLYASRDISPGEEITIGWDWD 125

PWWP_GLYR1

cd05836

PWWP domain found in glyoxylate reductase 1 (GLYR1) and similar proteins; GLYR1, also called ...

883-968

2.66e-10

PWWP domain found in glyoxylate reductase 1 (GLYR1) and similar proteins; GLYR1, also called 3-hydroxyisobutyrate dehydrogenase-like protein, cytokine-like nuclear factor N-PAC, nuclear protein NP60, or nuclear protein of 60 kDa, is a putative oxidoreductase that is recruited on chromatin and promotes KDM1B demethylase activity. It recognizes and binds trimethylated 'Lys-36' of histone H3 (H3K36me3). GLYR1 enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In addition to the PWWP domain, GLYR1 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438961 [Multi-domain] Cd Length: 86 Bit Score: 58.00 E-value: 2.66e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVCHPknvPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPY---MEGDRGSRyqgvrgIGRVF 959
Cdd:cd05836     5 DLVWAKMKGFPPWPGKIVNP---PPDLKKPPRKKKMHCVYFFGSENYAWIEDENIKPYeefKEEMLKSK------KSAGF 75


                  ....*....
gi 568933611  960 KNALQEAEA 968
Cdd:cd05836    76 KDAVEAIEE 84

HMG-box_NHP6-like

cd01390

high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone chromosomal ...

440-505

6.56e-10

high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone chromosomal proteins NHP6A, NHP6B and similar proteins; This subfamily includes Saccharomyces cerevisiae high-mobility-group proteins NHP6A and its closely related paralog NHP6B. NHP6A and NHP6B seem to be functionally redundant. They are DNA-binding proteins that induce severe bending of DNA and are required for DNA-binding by the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. They augment the fidelity of transcription by RNA polymerase III independently of any role in the FACT complex. They may also play essential roles in transcriptional initiation fidelity of some but not all tRNA genes.

Pssm-ID: 438792 [Multi-domain] Cd Length: 81 Bit Score: 56.99 E-value: 6.56e-10

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  440 GRKKSTGSAPRsrKGDSAaqFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd01390     5 GRKKKDPNAPK--RGLSA--YMFFSQDNREKVKEENPDATFGEVGKLLGEKWKELSEEEKAPYEEK 66

SET_Suv4-20-like

cd10524

SET domain (including post-SET domain) found in Drosophila melanogaster suppressor of ...

1074-1194

6.60e-10

SET domain (including post-SET domain) found in Drosophila melanogaster suppressor of variegation 4-20 (Suv4-20) and similar proteins; Suv4-20 (also termed Su(var)4-20) is a histone-lysine N-methyltransferase that specifically trimethylates 'Lys-20' of histone H4. It acts as a dominant suppressor of position-effect variegation. The family also includes Suv4-20 homologs, lysine N-methyltransferase 5B (KMT5B) and lysine N-methyltransferase 5C (KMT5C). Both KMT5B (also termed lysine-specific methyltransferase 5B, or suppressor of variegation 4-20 homolog 1, or Su(var)4-20 homolog 1, or Suv4-20h1) and KMT5C (also termed lysine-specific methyltransferase 5C, or suppressor of variegation 4-20 homolog 2, or Su(var)4-20 homolog 2, or Suv4-20h2) are histone methyltransferases that specifically trimethylate 'Lys-20' of histone H4 (H4K20me3). They play central roles in the establishment of constitutive heterochromatin in pericentric heterochromatin regions.

Pssm-ID: 380922 [Multi-domain] Cd Length: 141 Bit Score: 58.83 E-value: 6.60e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1074 KGWGLVAKRDIRKGEFVNEYVGELIDEEECMARIKYAHENDITHFYMLTIDKDRIIDaGPkgnySRFMNHSCQPNCetlK 1153
Cdd:cd10524    18 YGAKIIATKPIKKGEKIHELCGCIAELSEEEEALLRPGGNDFSVMYSSRKKCSQLWL-GP----AAFINHDCRPNC---K 89

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 568933611 1154 WTVNGDTRVGLFAVCDIPAGTELTFNYNLDCLGNEKTVCRC 1194
Cdd:cd10524    90 FVPTGKSTACVKVLRDIEPGEEITVYYGDNYFGENNEECEC 130

PHD1_PHF12

cd15533

PHD finger 1 found in PHD finger protein 12 (PHF12); PHF12, also termed PHD factor 1 (Pf1), is ...

835-873

7.90e-10

PHD finger 1 found in PHD finger protein 12 (PHF12); PHF12, also termed PHD factor 1 (Pf1), is a plant homeodomain (PHD) zinc finger-containing protein that bridges the transducin-like enhancer of split (TLE) corepressor to the mSin3A-histone deacetylase (HDAC)-complex, and further represses transcription at targeted genes. PHF12 also interacts with MRG15 (mortality factor-related genes on chromosome 15), a member of the mortality factor (MORF) family of proteins implicated in regulating cellular senescence. PHF12 contains two plant-homeodomain (PHD) zinc fingers followed by a polybasic region. The PHD fingers function downstream of phosphoinositide signaling triggered by the interaction between polybasic regions and phosphoinositides. This model corresponds to the first PHD finger.

Pssm-ID: 277008 [Multi-domain] Cd Length: 45 Bit Score: 55.44 E-value: 7.90e-10

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLN-----IEMPDGSWFCNDC 873
Cdd:cd15533     2 CDSCGEGGDLLCCDRCPASFHLQCCNppldeEDLPPGEWLCHRC 45

PHD1_AIRE

cd15539

PHD finger 1 found in autoimmune regulator (AIRE); AIRE, also termed autoimmune ...

835-873

1.56e-09

PHD finger 1 found in autoimmune regulator (AIRE); AIRE, also termed autoimmune polyendocrinopathy candidiasis ectodermal dystrophy (APECED) protein, functions as a regulator of gene transcription in the thymus. It is essential for prevention of autoimmunity. AIRE plays a critical role in the induction of central tolerance. It promotes self-tolerance through tissue-specific antigen (TSA) expression. It also acts as an active regulator of chondrocyte differentiation. AIRE contains a homogeneously-staining region (HSR) or caspase-recruitment domain (CARD), a nuclear localization signal (NLS), a SAND (for Sp100, AIRE, nuclear phosphoprotein 41/75 or NucP41/75, and deformed epidermal auto regulatory factor 1 or Deaf1) domain, two plant homeodomain (PHD) fingers, and four LXXLL (where L stands for leucine) motifs. This model corresponds to the first PHD finger that recognizes the unmethylated tail of histone H3 and targets AIRE-dependent genes.

Pssm-ID: 277014 [Multi-domain] Cd Length: 43 Bit Score: 54.38 E-value: 1.56e-09

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLNI---EMPDGSWFCNDC 873
Cdd:cd15539     2 CAVCGDGGELLCCDGCPRAFHLACLVPpltLIPSGTWRCSSC 43

PHD1_Rco1

cd15535

PHD finger 1 found in Saccharomyces cerevisiae transcriptional regulatory protein Rco1 and ...

835-873

2.33e-09

PHD finger 1 found in Saccharomyces cerevisiae transcriptional regulatory protein Rco1 and similar proteins; Rco1 is a component of the Rpd3S histone deacetylase complex that plays an important role at actively transcribed genes. Rco1 contains two plant homeodomain (PHD) fingers, which are required for the methylation of histone H3 lysine 36 (H3K36) nucleosome recognition by Rpd3S. This model corresponds to the first PHD finger.

Pssm-ID: 277010 [Multi-domain] Cd Length: 45 Bit Score: 53.96 E-value: 2.33e-09

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLNI-----EMPDGSWFCNDC 873
Cdd:cd15535     2 CSACGGYGSFLCCDGCPRSFHFSCLDPpleedNLPDDEWFCNEC 45

PWWP_GLYR1

cd05836

PWWP domain found in glyoxylate reductase 1 (GLYR1) and similar proteins; GLYR1, also called ...

220-309

2.96e-09

Pssm-ID: 438961 [Multi-domain] Cd Length: 86 Bit Score: 55.30 E-value: 2.96e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPLLhnhtkLKGQKKSARQYHVQFFGdAPERAWIFEKSLVAF-EGEEQFEKLCQESA 298
Cdd:cd05836     1 FKIGDLVWAKMKGFPPWPGKIVNPPPD-----LKKPPRKKKMHCVYFFG-SENYAWIEDENIKPYeEFKEEMLKSKKSAG 74

                          90
                  ....*....|..
gi 568933611  299 -KQAPTKAEKIK 309
Cdd:cd05836    75 fKDAVEAIEEYI 86

PWWP_ScIOC4-like

cd05840

PWWP domain found in Saccharomyces cerevisiae ISWI one complex protein 4 (ScIOC4) and similar ...

223-281

3.47e-09

PWWP domain found in Saccharomyces cerevisiae ISWI one complex protein 4 (ScIOC4) and similar proteins; ScIOC4 functions as a component of the ISW1B complex, which acts in remodeling the chromatin by catalyzing an ATP-dependent alteration in the structure of nucleosomal DNA. The ISW1B complex acts within coding regions to control the amount of RNA polymerase II released into productive elongation and to coordinate elongation with termination and pre-mRNA processing. The family also includes Schizosaccharomyces pombe PWWP domain-containing proteins 1 and 2 (SpPDP1 and SpPDP2). SpPDP1 associates with Set9 to regulate its chromatin localization and methyltransferase activity towards H4K20. Members of this family contain a PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438965 Cd Length: 94 Bit Score: 55.39 E-value: 3.47e-09

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568933611  223 GDLVWSKVSGYPWWPCMV---SADPLLHNHTKLKGQKKSARQYHVQFFGDaPERAWIFEKSL 281
Cdd:cd05840     1 GDLVLAKVKGYPPWPAMVlpeELLPKNVLKAKKRKPKSKKTVYPVQFFPD-NEYYWVSPSSL 61

HMG-box_SF

cd00084

high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ...

460-505

7.27e-09

high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenetically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4, and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.

Pssm-ID: 438789 [Multi-domain] Cd Length: 59 Bit Score: 53.29 E-value: 7.27e-09

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd00084     6 YLLFSKEKRPKLKKENPDLSFTEISKLLGERWKELSEEEKQPYEEK 51

PWWP_ScIOC4-like

cd05840

PWWP domain found in Saccharomyces cerevisiae ISWI one complex protein 4 (ScIOC4) and similar ...

883-932

1.11e-08

Pssm-ID: 438965 Cd Length: 94 Bit Score: 53.84 E-value: 1.11e-08

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 568933611  883 DIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEI-----GEFPVFFFGSKDYYWT 932
Cdd:cd05840     2 DLVLAKVKGYPPWPAMVLPEELLPKNVLKAKKRKpkskkTVYPVQFFPDNEYYWV 56

PHD5_NSD

cd15568

PHD finger 5 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

834-870

1.19e-08

Pssm-ID: 277043 [Multi-domain] Cd Length: 43 Bit Score: 51.95 E-value: 1.19e-08

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  834 WCFVCSKGGSLLCCEA--CPAAFHPDCLNIEM-PDGSWFC 870
Cdd:cd15568     1 ECFRCGDGGDLVLCDFkgCPKVYHLSCLGLEKpPGGKWIC 40

PWWP_HRP

cd05834

PWWP domain found in hepatoma-derived growth factor (HDGF)-related protein (HRP) family; The ...

220-285

2.23e-08

PWWP domain found in hepatoma-derived growth factor (HDGF)-related protein (HRP) family; The HRP family includes hepatoma-derived growth factor (HDGF), and HDGF-related proteins (HRPs). HDGF, also called high mobility group protein 1-like 2 (HMG-1L2), is a heparin-binding protein that acts as a transcriptional repressor with mitogenic activity for fibroblasts. It is a prognostic factor in several types of cancer. HDGFL1 is also called PWWP domain-containing protein 1 (PWWP1). Its biological function remains unclear. HDGFL2, also called HDGF-related protein 2 (HRP-2), or hepatoma-derived growth factor 2 (HDGF-2), is involved in cellular growth control, through the regulation of cyclin D1 expression. HDGFL3, also called HDGF-related protein 3 (HRP-3), enhances DNA synthesis and may play a role in cell proliferation. The family also includes PC4 and SFRS1-interacting protein (PSIP) and similar proteins. PSIP, also called CLL-associated antigen KW-7, dense fine speckles 70 kDa protein (DFS 70), lens epithelium-derived growth factor (LEDGF), or transcriptional coactivator p75/p52, acts as a transcriptional coactivator involved in neuroepithelial stem cell differentiation and neurogenesis. Members of the HRP family contains a PWWP domain, which is necessary for DNA binding.

Pssm-ID: 438959 [Multi-domain] Cd Length: 82 Bit Score: 52.56 E-value: 2.23e-08

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPllhnhtklKGQKKSARQYHVQFFGdAPERAWIFEKSLVAFE 285
Cdd:cd05834     1 FKPGDLVFAKVKGYPPWPARIDEIP--------EGAKIPKNKYPVFFYG-THETAFLKPKDLFPYE 57

PWWP_AtATX1-like

cd20142

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like ...

221-285

6.88e-08

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like proteins ATX1, ATX2, and similar proteins; This family includes A. thaliana ATX1 and ATX2, which are sister paralogs originating from a segmental chromosomal duplication. They are plant counterparts of the Drosophila melanogaster trithorax (TRX) and mammalian mixed-lineage leukemia (MLL1) proteins. ATX1, also called protein SET domain group 27, or trithorax-homolog protein 1 (TRX-homolog protein 1), is a methyltransferase that trimethylates histone H3 at lysine 4 (H3K4me3). It also acts as a histone modifier and as a positive effector of gene expression. ATX1 regulates transcription from diverse classes of genes implicated in biotic and abiotic stress responses. It is involved in dehydration stress signaling in both abscisic acid (ABA)-dependent and ABA-independent pathways. ATX2, also called protein SET domain group 30, or trithorax-homolog protein 2 (TRX-homolog protein 2), is involved in dimethylating histone H3 at lysine 4 (H3K4me2). Both ATX1 and ATX2 are multi-domain containing proteins that consist of an N-terminal PWWP domain, FYRN- and FYRC (DAST, domain associated with SET in trithorax) domains, a canonical plant homeodomain (PHD) domain, a non-canonical extended PHD (ePHD) domain, and a C-terminal SET domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438970 [Multi-domain] Cd Length: 97 Bit Score: 51.58 E-value: 6.88e-08

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568933611  221 NVGDLVWSKVSGYPWWPCMVsadpLLHNHTKLKG----QKKSARQYHVQFFGDApERAWIFEKSLVAFE 285
Cdd:cd20142     1 SPGDVVWAKVKGYPMWPALV----IDEEHAERCGleanRPGKKGTVPVQFFGTY-EVARLNPKKVVGFS 64

TNG2

COG5034

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

546-711

8.68e-08

Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics];

Pssm-ID: 227367 [Multi-domain] Cd Length: 271 Bit Score: 55.33 E-value: 8.68e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  546 RKRLRADKHSLRKQRETITDKTARTSSYKAIEAASSLKSQA---ATKNLSDACKplKKRNRASATASSALGFNKSSSPSA 622
Cdd:COG5034    98 RHRKLLDDRIAKRPHEKVAARIENCHDAVSRLERNSYSSAArrsSGEHRSAASS--QGSRHTKLKKRKNIHNLKRRSPEL 175

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  623 SLTEHeVSDSPGDEPSESpyESADETQTEASVSSKK---SERGMAAKKEYVCqLCEKT--GSLLLCEGPCCGA--FHLAC 695
Cdd:COG5034   176 SSKRE-VSFTLESPSVPD--TATRVKEGNNGGSTKSrgvSSEDNSEGEELYC-FCQQVsyGQMVACDNANCKRewFHLEC 251

                         170
                  ....*....|....*.
gi 568933611  696 LGLSRRPEGRFTCTEC 711
Cdd:COG5034   252 VGLKEPPKGKWYCPEC 267

HMG

smart00398

high mobility group;

460-506

1.13e-07

high mobility group;

Pssm-ID: 197700 [Multi-domain] Cd Length: 70 Bit Score: 50.01 E-value: 1.13e-07

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 568933611    460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKF 506
Cdd:smart00398    9 FMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKA 55

HMG_box

pfam00505

HMG (high mobility group) box;

459-507

1.14e-07

HMG (high mobility group) box;

Pssm-ID: 459837 [Multi-domain] Cd Length: 68 Bit Score: 49.92 E-value: 1.14e-07

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 568933611   459 QFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:pfam00505    7 AFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAE 55

PWWP_AtATX1-like

cd20142

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like ...

883-975

1.97e-07

Pssm-ID: 438970 [Multi-domain] Cd Length: 97 Bit Score: 50.43 E-value: 1.97e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPA-----EVCHPKNVPPNIQKMKHEIgefPVFFFGSKDYYWTHQARVFPYMEG-DRGSRYQGVRGig 956
Cdd:cd20142     4 DVVWAKVKGYPMWPAlvideEHAERCGLEANRPGKKGTV---PVQFFGTYEVARLNPKKVVGFSKGlDLKYHSKCKAP-- 78

                          90
                  ....*....|....*....
gi 568933611  957 rVFKNALQEAEARFNEVKL 975
Cdd:cd20142    79 -VFRQALEEAERYLKEGKL 96

PHD1_BPTF

cd15559

PHD finger 1 found in bromodomain and PHD finger-containing transcription factor (BPTF); BPTF, ...

835-873

2.14e-07

PHD finger 1 found in bromodomain and PHD finger-containing transcription factor (BPTF); BPTF, also termed nucleosome-remodeling factor subunit BPTF, or fetal Alz-50 clone 1 protein (FAC1), or fetal Alzheimer antigen, functions as a transcriptional regulator that exhibits altered expression and subcellular localization during neuronal development and neurodegenerative diseases such as Alzheimer's disease. It interacts with the human orthologue of the Kelch-like Ech-associated protein (Keap1). Its function and subcellular localization can be regulated by Keap1. Moreover, BPTF is a novel DNA-binding protein that recognizes the DNA sequence CACAACAC and represses transcription through this site in a phosphorylation-dependent manner. Furthermore, BPTF interacts with the Myc-associated zinc finger protein (ZF87/MAZ) and alters its transcriptional activity, which has been implicated in gene regulation in neurodegeneration. Some family members contain two or three plant homeodomain (PHD) fingers, which may be involved in complex formation with histone H3 trimethylated at K4 (H3K4me3). This family corresponds to the first PHD finger.

Pssm-ID: 277034 [Multi-domain] Cd Length: 43 Bit Score: 48.57 E-value: 2.14e-07

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15559     2 CRVCHKLGDLLCCETCSAVYHLECVDpplEEVPEEDWQCEVC 43

PHD_TIF1gamma

cd15624

PHD finger found in transcriptional intermediary factor 1 gamma (TIF1gamma); TIF1gamma, also ...

834-874

2.56e-07

PHD finger found in transcriptional intermediary factor 1 gamma (TIF1gamma); TIF1gamma, also termed tripartite motif-containing 33 (trim33), or ectodermin, or RFG7, or PTC7, is an E3-ubiquitin ligase that functions as a regulator of transforming growth factor beta (TGFbeta) signaling; it inhibits the Smad4-mediated TGFbeta response by interaction with Smad2/3 or ubiquitylation of Smad4. Moreover, TIF1gamma is an important regulator of transcription during hematopoiesis, as well as a key factor of tumorigenesis. Like other TIF1 family members, TIF1gamma also contains an intrinsic transcriptional silencing function. It can control erythroid cell fate by regulating transcription elongation. It can bind to the anaphase-promoting complex/cyclosome (APC/C) and promotes mitosis. TIF1gamma contains an N-terminal RBCC (RING finger, B-box zinc-fingers, coiled-coil), a plant homeodomain (PHD) finger, followed by a bromodomain in the C-terminal region.

Pssm-ID: 277094 Cd Length: 46 Bit Score: 48.51 E-value: 2.56e-07

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDC---LNIEMPDGSWFCNDCR 874
Cdd:cd15624     1 WCAVCQNGGDLLCCEKCPKVFHLTChvpTLLSFPSGDWICTFCR 44

PHD

PHD-finger; PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar ...

834-874

2.88e-07

Pssm-ID: 425785 [Multi-domain] Cd Length: 51 Bit Score: 48.26 E-value: 2.88e-07

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 568933611   834 WCFVCSK---GGSLLCCEACPAAFHPDCLNI-----EMPDGSWFCNDCR 874
Cdd:pfam00628    1 YCAVCGKsddGGELVQCDGCDDWFHLACLGPpldpaEIPSGEWLCPECK 49

PWWP_HULK

cd20147

PWWP domain found in Arabidopsis thaliana protein HUA2-LIKE (HULK) family; The HULK family ...

223-301

5.66e-07

PWWP domain found in Arabidopsis thaliana protein HUA2-LIKE (HULK) family; The HULK family includes HUA2-like proteins 1-3 (HULK1-3), which are probable transcription factors that act with partial redundancy with each other. They may play diverse and essential roles in the control of plant development, physiology and flowering time. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438975 [Multi-domain] Cd Length: 92 Bit Score: 49.02 E-value: 5.66e-07

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568933611  223 GDLVWSKVSGYPWWPCMVSadpllhnHTKLKGQKKSARQYHVQFFGdAPERAWIFEKSLVAFEgEEQFEKLCQESAKQA 301
Cdd:cd20147     1 GDLVLAKVKGFPAWPAQVS-------EPEDWGSAPDPKKVFVHFFG-TQQIGFCNPGELSEFT-EEIKQSLLARTLKKK 70

SET_SpSet7-like

cd10540

SET domain found in Schizossacharomyces pombe Set7 and similar proteins; Schizosaccharomyces ...

1068-1181

6.61e-07

SET domain found in Schizossacharomyces pombe Set7 and similar proteins; Schizosaccharomyces pombe Set7 is a novel histone-lysine N-methyltransferase. The family also includes a viral histone H3 lysine 27 methyltransferase from Paramecium bursaria Chlorella virus 1 (PBCV-1).

Pssm-ID: 380938 Cd Length: 112 Bit Score: 49.17 E-value: 6.61e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1068 IIKTDGKGWGLVAKRDIRKGEFVNE-YVGELIDEEecmarikYAHEndithfyMLTIDKDRIIDAG------PKGNYSRF 1140
Cdd:cd10540     4 VKPSTLKGRGVFATRPIKKGEVIEEaPVIVLPKEE-------YQHL-------CKTVLDHYVFSWGdgclalALGYGSMF 69

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 568933611 1141 mNHSCQPNCEtlKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:cd10540    70 -NHSYTPNAE--YEIDFENQTIVFYALRDIEAGEELTINYG 107

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

834-873

6.93e-07

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 47.21 E-value: 6.93e-07

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 568933611    834 WCFVCSK---GGSLLCCEACPAAFHPDCLNI----EMPDGSWFCNDC 873
Cdd:smart00249    1 YCSVCGKpddGGELLQCDGCDRWYHQTCLGPplleEEPDGKWYCPKC 47

PHD_TIF1_like

cd15541

PHD finger found in the transcriptional intermediary factor 1 (TIF1) family and similar ...

834-873

1.25e-06

PHD finger found in the transcriptional intermediary factor 1 (TIF1) family and similar proteins; The TIF1 family of transcriptional cofactors includes TIF1alpha (TRIM24), TIF1beta (TRIM28), TIF1gamma (TRIM33), and TIF1delta (TRIM66), which are characterized by an N-terminal RING-finger B-box coiled-coil (RBCC/TRIM) motif and plant homeodomain (PHD) finger followed by a bromodomain in the C-terminal region. TIF1 proteins couple chromatin modifications to transcriptional regulation, signaling, and tumor suppression. They exert a deacetylase-dependent silencing effect when tethered to a promoter region. TIF1alpha, TIF1beta, and TIF1delta can homodimerize and contain a PXVXL motif necessary and sufficient for heterochromatin protein 1(HP1) binding. TIF1alpha and TIF1beta bind nuclear receptors and Kruppel-associated boxes (KRAB) specifically and respectively. In contrast, TIF1delta appears to lack nuclear receptor- and KRAB-binding activity. Moreover, TIF1delta is specifically involved in heterochromatin-mediated gene silencing during postmeiotic phases of spermatogenesis. TIF1gamma is structurally closely related to TIF1alpha and TIF1beta, but has very little functional features in common with them. It does not interact with the KRAB silencing domain of KOX1 or the heterochromatinic proteins HP1alpha, beta, and gamma. It cannot bind to nuclear receptors (NRs). This family also includes Sp100/Sp140 family proteins, the nuclear body SP100 and SP140. Sp110 is a leukocyte-specific component of the nuclear body. It may function as a nuclear hormone receptor transcriptional coactivator that may play a role in inducing differentiation of myeloid cells. It is also involved in resisting intracellular pathogens and functions as an important drug target for preventing intracellular pathogen diseases, such as tuberculosis, hepatic veno-occlusive disease, and intracellular cancers. SP140 is an interferon inducible nuclear leukocyte-specific protein involved in primary biliary cirrhosis and a risk factor in chronic lymphocytic leukemia. It is also implicated in innate immune response to human immunodeficiency virus type 1 (HIV-1) by binding to the virus viral infectivity factor (Vif) protein. Both Sp110 and Sp140 contain a SAND domain, a plant homeodomain (PHD) finger, and a bromodomain (BRD).

Pssm-ID: 277016 [Multi-domain] Cd Length: 43 Bit Score: 46.18 E-value: 1.25e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDC---LNIEMPDGSWFCNDC 873
Cdd:cd15541     1 WCAVCQNGGELLCCDKCPRVFHLDChipPIPEFPSGEWSCSLC 43

HMG-box_HBP2

cd21989

high mobility group (HMG)-box found in HMG box-containing protein 2 (HBP2) and similar ...

460-503

1.33e-06

high mobility group (HMG)-box found in HMG box-containing protein 2 (HBP2) and similar proteins; HBP2, also called HMG box transcription factor BBX, or Bobby sox homolog, is a transcription factor that is necessary for cell cycle progression from the G1 to S phase.

Pssm-ID: 438805 [Multi-domain] Cd Length: 69 Bit Score: 47.02 E-value: 1.33e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYN 503
Cdd:cd21989     7 FLLFCKRHRSLVRERHPRLDNRGITKILGDWWAVLDPDEKQKYT 50

PHD_TIF1alpha

cd15622

PHD finger found in transcription intermediary factor 1-alpha (TIF1-alpha); TIF1-alpha, also ...

834-873

1.62e-06

PHD finger found in transcription intermediary factor 1-alpha (TIF1-alpha); TIF1-alpha, also termed tripartite motif-containing protein 24 (TRIM24), or E3 ubiquitin-protein ligase TRIM24, or RING finger protein 82, belongs to the TRIM/RBCC protein family. It interacts specifically and in a ligand-dependent manner with the ligand binding domain (LBD) of several nuclear receptors (NRs), including retinoid X (RXR), retinoic acid (RAR), vitamin D3 (VDR), estrogen (ER), and progesterone (PR) receptors. It also associates with heterochromatin-associated factors HP1alpha, MOD1 (HP1beta) and MOD2 (HP1gamma), as well as vertebrate Kruppel-type (C2H2) zinc finger proteins that contain transcriptional silencing domain KRAB. TIF1-alpha is a ligand-dependent co-repressor of retinoic acid receptor (RAR) that interacts with multiple nuclear receptors in vitro via an LXXLL motif, and further acts as a gatekeeper of liver carcinogenesis. It also functions as an E3-ubiquitin ligase targeting p53 and is broadly associated with chromatin silencing. Moreover, it is a chromatin regulator that recognizes specific, combinatorial histone modifications through its C-terminal plant homeodomain (PHD)-Bromodomain (Bromo) region. In addition, it interacts with chromatin and estrogen receptor to activate estrogen-dependent genes associated with cellular proliferation and tumor development. TIF1-alpha contains an N-terminal RBCC (RING finger, B-box zinc-fingers, coiled-coil), a plant homeodomain (PHD) finger, followed by a bromodomain in the C-terminal region.

Pssm-ID: 277092 Cd Length: 43 Bit Score: 46.21 E-value: 1.62e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDC---LNIEMPDGSWFCNDC 873
Cdd:cd15622     1 WCAVCQNGGELLCCEKCPKVFHLSChvpTLMNFPSGEWICTFC 43

PHD1_Lid2p_like

cd15519

PHD finger 1 found in Schizosaccharomyces pombe Lid2 complex component Lid2p and similar ...

835-873

1.74e-06

PHD finger 1 found in Schizosaccharomyces pombe Lid2 complex component Lid2p and similar proteins; Lid2p is a trimethyl H3K4 (H3K4me3) demethylase responsible for H3K4 hypomethylation in heterochromatin. It interacts with the histone lysine-9 methyltransferase, Clr4, through the Dos1/Clr8-Rik1 complex, and mediates H3K9 methylation and small RNA production. It also acts cooperatively with the histone modification enzymes Set1 and Lsd1 and plays an essential role in cross-talk between H3K4 and H3K9 methylation in euchromatin. Lid2p contains a JmjC domain, three PHD fingers and a JmjN domain. This model corresponds to the first PHD finger.

Pssm-ID: 276994 [Multi-domain] Cd Length: 46 Bit Score: 45.92 E-value: 1.74e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611  835 CFVCSKG---GSLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15519     2 CEVCGLDdneGEVLLCDGCDAEYHTSCLDpplGEIPPGTWFCPSC 46

SET_ATXR5_6-like

cd10539

SET domain found in fungal protein lysine methyltransferase SET5 and similar protein; The ...

1080-1181

1.79e-06

SET domain found in fungal protein lysine methyltransferase SET5 and similar protein; The family includes Arabidopsis thaliana ATXR5 and ATXR6. Both ATXR5 (also termed protein SET DOMAIN GROUP 15, or TRX-related protein 5) and ATXR6 (also termed protein SET DOMAIN GROUP 34, or TRX-related protein 6) function as histone methyltransferase that specifically monomethylates 'Lys-37' of histone H3 (H3K27me1). They are required for chromatin structure and gene silencing.

Pssm-ID: 380937 Cd Length: 138 Bit Score: 48.95 E-value: 1.79e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1080 AKRDIRKGEFVNEYVGElIDEEECmaRIKYahENDITHFYMLTIDKDRIIDAGP--KGNYSRFM----NHSCQ----PNC 1149
Cdd:cd10539    20 ADGFIKDLTIIAEYTGD-VDYIRN--REFD--DNDSIMTLLLAGDPSKSLVICPdkRGNIARFIsginNHTKDgkkkQNC 94

                          90       100       110
                  ....*....|....*....|....*....|..
gi 568933611 1150 ETLKWTVNGDTRVGLFAVCDIPAGTELTFNYN 1181
Cdd:cd10539    95 KCVRYSINGEARVLLVATRDIAKGERLYYDYN 126

PHD2_CHD_II

cd15532

PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD ...

1243-1282

2.09e-06

Pssm-ID: 277007 [Multi-domain] Cd Length: 43 Bit Score: 45.73 E-value: 2.09e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1243 CFRCGDGGQLVLCDrkFCTKAYHLSCLG--LGKRPFGKWECP 1282
Cdd:cd15532     2 CRVCKDGGELLCCD--GCPSSYHLHCLNppLAEIPDGDWFCP 41

PWWP_PWWP2

cd20140

PWWP domain found in the PWWP domain-containing protein 2 (PWWP2) family; The PWWP2 family ...

220-242

2.38e-06

PWWP domain found in the PWWP domain-containing protein 2 (PWWP2) family; The PWWP2 family includes PWWP2A and its paralog PWWP2B. PWWP2A is a H2A.Z-specific chromatin binding protein which may play an important role in the neural crest stem cell migration and differentiation during early development. It is also required for proper mitosis progression. PWWP2A and PWWP2B form a stable complex with NuRD subunits MTA1/2/3:HDAC1/2:RBBP4/7, but not with MBD2/3, p66alpha/beta, and CHD3/4. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438968 Cd Length: 92 Bit Score: 47.26 E-value: 2.38e-06

                          10        20
                  ....*....|....*....|...
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSA 242
Cdd:cd20140     4 LRVGDIVWGKIHGFPWWPGRILS 26

HMG-box_HMGB_rpt2

cd21979

second high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; ...

460-505

2.46e-06

second high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; HMGB proteins are chromatin-associated nuclear proteins that act as architectural factors in nucleoprotein structures, which regulate DNA-dependent processes including transcription. In mammals, four family members are present: HMGB1, HMGB2, HMGB3 and HMGB4. They regulate the expression of a wide range of genes through architectural remodeling of the chromatin structure. HMGB1, also called high mobility group protein 1 (HMG-1), is a prototypical alarmin or damage-associated molecular pattern (DAMP) molecule when released from cells. It plays important roles in the regulation of a wide range of processes, including transcription, replication, DNA repair, and nucleosome formation, in the nucleus. It also plays multiple roles in regulating inflammation and responses to cell and tissue stress. HMGB2, also called high mobility group protein 2 (HMG-2), has been implicated in numerous cellular processes, including proliferation, differentiation, apoptosis, and tumor growth. It acts as a chromatin-associated nonhistone protein involved in transcriptional regulation and nucleic-acid-mediated innate immune responses in mammalian. It binds DNA to stabilize nucleosomes and promote transcription. HMGB3, also called high mobility group protein 2a (HMG-2a), or high mobility group protein 4 (HMG-4), is an X-linked member of HMGB family and functions as a universal sentinel for nucleic acid-mediated innate immune responses. HMGB3 has been implicated in the regulation of cellular proliferation and differentiation, as well as inflammatory response. HMGB4 is expressed by neuronal cells and affects the expression of genes involved in neural differentiation. It is a factor that regulates chromatin and expression of neuronal differentiation markers. The family also includes high mobility group protein B1 pseudogene 1 (HMGB1P1) and nuclear auto-antigen Sp-100. HMGB1P1, also called putative high mobility group protein B1-like 1 (HMGB1L1), or putative high mobility group protein 1-like 1 (HMG-1L1), is an HMG-box containing protein that binds preferentially single-stranded DNA and unwinds double-stranded DNA. Sp-100, also called nuclear dot-associated Sp100 protein, or speckled 100 kDa. It is a tumor suppressor that is a major constituent of the promyelocytic leukemia (PML) bodies, a subnuclear organelle involved in many physiological processes including cell growth, differentiation and apoptosis. Through the regulation of ETS1, Sp-100 may play a role in angiogenesis, controlling endothelial cell motility and invasion. It may also play roles in the regulation of telomeres lengthening, TP53-mediated transcription, FAS-mediated apoptosis, etc. In addition, the family includes Drosophila melanogaster high mobility group protein DSP1 (dDSP1) and similar proteins. dDSP1, also called protein dorsal switch 1, is a Drosophila HMG1 protein that binds preferentially single-stranded DNA and unwinds double-stranded DNA. It converts Dorsal and nuclear factor (NF)-kappa B from transcriptional activators to repressors. Members of the HMGB family contain two HMG-box domains. This model corresponds to the second one.

Pssm-ID: 438795 [Multi-domain] Cd Length: 71 Bit Score: 46.25 E-value: 2.46e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd21979    10 FFLFCSEHRPKIKGEHPGLSIGDVAKKLGEMWNNTSAKDKQPYEKK 55

PHD1_CHD_II

cd15531

PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD ...

834-873

2.53e-06

PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD proteins includes chromodomain-helicase-DNA-binding protein CHD3, CHD4, and CHD5, which are nuclear and ubiquitously expressed chromatin remodelling ATPases generally associated with histone deacetylases (HDACs). They are involved in DNA Double Strand Break (DSB) signaling, DSB repair and/or p53-dependent pathways such as apoptosis and senescence, as well as in the maintenance of genomic stability, and/or cancer prevention. They function as subunits of the Nucleosome Remodelling and Deacetylase (NuRD) complex, which is generally associated with gene repression, heterochromatin formation, and overall chromatin compaction. In contrast to the class I CHD enzymes (CHD1 and CHD2), class II CHD proteins lack identifiable DNA-binding domains, but possess a C-terminal coiled-coil region. Moreover, in addition to the tandem chromodomains and a helicase domain, they all harbor tandem plant homeodomain (PHD) zinc fingers involved in the recognition of methylated histone tails. This model corresponds to the first PHD finger.

Pssm-ID: 277006 [Multi-domain] Cd Length: 43 Bit Score: 45.67 E-value: 2.53e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEM---PDGSWFCNDC 873
Cdd:cd15531     1 YCEVCQQGGEIILCDTCPRAYHLVCLDPELekaPEGKWSCPHC 43

PWWP_HDGF

cd20148

PWWP domain found in Hepatoma-derived growth factor (HDGF); HDGF, also called high mobility ...

220-292

2.91e-06

PWWP domain found in Hepatoma-derived growth factor (HDGF); HDGF, also called high mobility group protein 1-like 2 (HMG-1L2), is a heparin-binding protein that acts as a transcriptional repressor with mitogenic activity for fibroblasts. It contains a PWWP domain, which is necessary for DNA binding.

Pssm-ID: 438976 [Multi-domain] Cd Length: 87 Bit Score: 46.56 E-value: 2.91e-06

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMVSADPllhnhtkLKGQKKSARQYHVQFFGdAPERAWIFEKSLVAFEG-EEQFEK 292
Cdd:cd20148     1 YKCGDLVFAKMKGYPHWPARIDEMP-------EAAVKSTANKYQVFFFG-THETAFLGPKDLFPYEEsKEKFGK 66

SET_SETD5

cd19181

SET domain (including post-SET domain) found in SET domain-containing protein 5 (SETD5) and ...

1078-1199

4.41e-06

SET domain (including post-SET domain) found in SET domain-containing protein 5 (SETD5) and similar proteins; SETD5 is a probable transcriptional regulator that acts via the formation of large multiprotein complexes that modify and/or remodel the chromatin. SETD5 loss-of-function mutations are a likely cause of a familial syndromic intellectual disability with variable phenotypic expression.

Pssm-ID: 380958 Cd Length: 150 Bit Score: 48.08 E-value: 4.41e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1078 LVAKRDIRKGEFVNEYVGELIDEEECMARIKY-AHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWTV 1156
Cdd:cd19181    21 LRAARDLALDTLIIEYRGKVMLRQQFEVNGHFfKRPYPFVLFYSKFNGVEMCVDARTFGNDARFIRRSCTPNAEVRHMIA 100

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 568933611 1157 NGDTRVGLFAVCDIPAGTELTF---------NYNLDClgnektVCRCGASNC 1199
Cdd:cd19181   101 DGMIHLCIYAVAAIAKDAEVTIafdyeysncNYKVDC------ACHKGNRNC 146

PHD_TIF1delta

cd15625

PHD finger found in transcriptional intermediary factor 1 delta (TIF1delta); TIF1delta, also ...

831-874

4.99e-06

PHD finger found in transcriptional intermediary factor 1 delta (TIF1delta); TIF1delta, also termed tripartite motif-containing protein 66 (TRIM66), is a novel heterochromatin protein 1 (HP1)-interacting member of the transcriptional intermediary factor1 (TIF1) family expressed by elongating spermatids. Like other TIF1 proteins, TIF1delta displays a potent trichostatin A (TSA)-sensitive repression function; TSA is a specific inhibitor of histone deacetylases. Moreover, TIF1delta plays an important role in heterochromatin-mediated gene silencing during postmeiotic phases of spermatogenesis. It functions as a negative regulator of postmeiotic genes acting through HP1 isotype gamma (HP1gamma) complex formation and centromere association. TIF1delta contains an N-terminal RBCC (RING finger, B-box zinc-fingers, coiled-coil), a plant homeodomain (PHD) finger, followed by a bromodomain in the C-terminal region.

Pssm-ID: 277095 [Multi-domain] Cd Length: 49 Bit Score: 44.95 E-value: 4.99e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  831 NVSWCFVCSKGGSLLCCEACPAAFHPDC---LNIEMPDGSWFCNDCR 874
Cdd:cd15625     1 NEDFCAVCLNGGELLCCDRCPKVFHLSChvpALLSFPVGEWVCTLCR 47

PWWP_HRP

cd05834

PWWP domain found in hepatoma-derived growth factor (HDGF)-related protein (HRP) family; The ...

883-968

5.32e-06

Pssm-ID: 438959 [Multi-domain] Cd Length: 82 Bit Score: 45.62 E-value: 5.32e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVCHpknVPPNIQKMKheiGEFPVFFFGSKDYYWTHQARVFPYME----GDRGSRYQGvrgigrv 958
Cdd:cd05834     5 DLVFAKVKGYPPWPARIDE---IPEGAKIPK---NKYPVFFYGTHETAFLKPKDLFPYEEnkekYGKPRKRKG------- 71

                          90
                  ....*....|
gi 568933611  959 FKNALQEAEA 968
Cdd:cd05834    72 FNEGLWEIEN 81

HMG-box_AtHMGB6-like_rpt1

cd22006

first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...

460-507

5.40e-06

first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 6 (HMGB6) and similar proteins; HMGB6, also called nucleosome/chromatin assembly factor group D 06 (or D 6), WRKY transcription factor 53 (WRKY53), or WRKY DNA-binding protein 53, is a master regulator of age-induced leaf senescence. It acts in a complex transcription factor signaling network regulating senescence specific gene expression; hydrogen peroxide might be involved in signal transduction. The subfamily also includes Arabidopsis thaliana HMGB13 (also known as nucleosome/chromatin assembly factor group D 13). Both HMGB6 and HMGB13 contain three HMG-box domains. This model corresponds to the first one.

Pssm-ID: 438822 [Multi-domain] Cd Length: 68 Bit Score: 45.14 E-value: 5.40e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:cd22006     7 YFLWCKDQREEVKKENPNADFSEVSKILGAKWKNLSEEEKKPYEEKYK 54

PHD_PRKCBP1

cd15538

PHD finger found in protein kinase C-binding protein 1 (PRKCBP1); PRKCBP1, also termed ...

835-873

5.48e-06

PHD finger found in protein kinase C-binding protein 1 (PRKCBP1); PRKCBP1, also termed cutaneous T-cell lymphoma-associated antigen se14-3 (CTCL-associated antigen se14-3), or Rack7, or zinc finger MYND domain-containing protein 8 (ZMYND8), is a novel receptor for activated C-kinase (RACK)-like protein that may play an important role in the activation and regulation of PKC-beta I, and the PKC signaling cascade. It also has been identified as a formin homology-2-domain containing protein 1 (FHOD1)-binding protein that may be involved in FHOD1-regulated actin polymerization and transcription. Moreover, PRKCBP1 may function as a REST co-repressor 2 (RCOR2) interacting factor; the RCOR2/ZMYND8 complex which might be involved in the regulation of neural differentiation. PRKCBP1 contains a plant homeodomain (PHD) finger, a bromodomain, and a proline-tryptophan-tryptophan-proline (PWWP) domain.

Pssm-ID: 277013 Cd Length: 41 Bit Score: 44.62 E-value: 5.48e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLNI-EMPDGSWFCNDC 873
Cdd:cd15538     2 CWRCHKEGQVLCCSLCPRVYHKKCLKLtSEPDEDWVCPEC 41

PHD4_NSD

cd15567

PHD finger 4 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

671-711

6.14e-06

Pssm-ID: 277042 [Multi-domain] Cd Length: 41 Bit Score: 44.16 E-value: 6.14e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  671 CQLCEKTGSLLLCEGpCCGAFHLACLGLSRRPEGRFTCTEC 711
Cdd:cd15567     2 CFICSEGGSLICCES-CPASFHPECLGLEPPPEGKFYCEDC 41

PHD5_NSD

cd15568

PHD finger 5 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

670-708

6.31e-06

Pssm-ID: 277043 [Multi-domain] Cd Length: 43 Bit Score: 44.24 E-value: 6.31e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  670 VCQLCEKTGSLLLCEGPCCG-AFHLACLGLSRRPEGRFTC 708
Cdd:cd15568     1 ECFRCGDGGDLVLCDFKGCPkVYHLSCLGLEKPPGGKWIC 40

HMG-box_PMS1

cd21985

high mobility group (HMG)-box found in PMS1 protein homolog 1 (PMS1) and similar proteins; ...

452-505

7.17e-06

high mobility group (HMG)-box found in PMS1 protein homolog 1 (PMS1) and similar proteins; PMS1, also called DNA mismatch repair protein PMS1, is probably involved in the repair of mismatches in DNA.

Pssm-ID: 438801 [Multi-domain] Cd Length: 73 Bit Score: 45.23 E-value: 7.17e-06

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  452 RKGDSAaqFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd21985     3 RKPMSA--SALFEQETRPQFLAENPKASLQDITLKIEERWKNLSEEEKKKYEEK 54

HMG-box_ABF2_IXR1-like_rpt2

cd22012

second high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...

457-503

9.74e-06

second high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ARS-binding factor 2 (ABF2), intrastrand cross-link recognition protein (Ixr1) and similar proteins; ABF2 is a close relative of the nuclear, chromosomal high-mobility group protein HMG1 in yeast mitochondria. It specifically binds to the autonomously replicating sequence 1 (ARS1). It might play a positive role in gene expression and replication. Ixr1, also called structure-specific recognition protein (SSRP), is a homolog of the yeast mitochondrial regulator ABF2. It binds to platinated DNA and confers sensitivity to the anticancer drug cisplatin. Both ABF2 and Ixr1 contain two HMG-box domains. This model corresponds to the second one.

Pssm-ID: 438828 [Multi-domain] Cd Length: 64 Bit Score: 44.58 E-value: 9.74e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  457 AAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYN 503
Cdd:cd22012     6 ASAYFLFAKEVRPKLKEENPNEKYTDITKLISEKWRSLDESEKEPYQ 52

HMG-box_HMG20

cd21980

high mobility group (HMG)-box found in the high mobility group protein 20 (HMG20) subfamily; ...

460-502

9.75e-06

high mobility group (HMG)-box found in the high mobility group protein 20 (HMG20) subfamily; The HMG20 subfamily includes HMG20A and HMG20B. HMG20A, also called HMG box-containing protein 20A, HMG domain-containing protein 1, HMG domain-containing protein HMGX1, HMGXB1, or iBRAF, is a chromatin-associated protein involved in neuronal differentiation and maturation. It is required for SNAI1-mediated epithelial to mesenchymal transition. HMG20A acts as an inhibitor of HMG20B. HMG20B, also called SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related, SMARCE1-related protein (SMARCE1R), BRCA2-associated factor 35 (BRAF35), HMG box-containing protein 20B, HMG domain-containing protein 2, HMG domain-containing protein HMGX2, Sox-like transcriptional factor, or structural DNA-binding protein BRAF35, is a DNA binding factor that acts as a repressor of erythroid differentiation. It is required for correct progression through the G2 phase of the cell cycle and entry into mitosis. It is also required for RCOR1/CoREST mediated repression of neuronal specific gene promoters. HMG20B is a core subunit of the Lys-specific demethylase 1/REST co-repressor 1 (LSD1-CoREST) histone demethylase complex. Both HMG20A and HMG20B contain one HMG-box.

Pssm-ID: 438796 [Multi-domain] Cd Length: 81 Bit Score: 44.85 E-value: 9.75e-06

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd21980     9 YVRFLNERREKLRAENPDLSFPEITKILGAEWSSLSAEEKQKY 51

PHD1_AIRE

cd15539

PHD finger 1 found in autoimmune regulator (AIRE); AIRE, also termed autoimmune ...

1242-1281

1.06e-05

Pssm-ID: 277014 [Multi-domain] Cd Length: 43 Bit Score: 43.59 E-value: 1.06e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1242 ECFRCGDGGQLVLCDRkfCTKAYHLSCLG--LGKRPFGKWEC 1281
Cdd:cd15539     1 ECAVCGDGGELLCCDG--CPRAFHLACLVppLTLIPSGTWRC 40

PHD_SF

cd15489

PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) ...

835-873

1.15e-05

Pssm-ID: 276966 [Multi-domain] Cd Length: 48 Bit Score: 43.84 E-value: 1.15e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  835 CFVCSKGG----SLLCCEACPAAFHPDCLNIE----MPDGSWFCNDC 873
Cdd:cd15489     2 CIVCGKGGdlggELLQCDGCGKWFHADCLGPPlssfVPNGKWICPVC 48

PWWP_MSH6

cd05837

PWWP domain found in DNA mismatch repair protein MSH6 and similar proteins; MSH6, also called ...

883-981

1.16e-05

Pssm-ID: 438962 Cd Length: 103 Bit Score: 45.35 E-value: 1.16e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVC-HPKNvppNIQKMKHEIGEFPVFFFG---SKDyyWTHQARVFPYMEGDRGSRYQGvrgiGRV 958
Cdd:cd05837     5 DLVWAKLEGYPWWPSLVCnHPTT---GFHKKFGKKGEVHVQFFDdppSRA--WVKAKNVKPFTGSDDKEFQKG----GMF 75

                          90       100
                  ....*....|....*....|....*....
gi 568933611  959 F------KNALQEAEarfNEVKLQREARE 981
Cdd:cd05837    76 FskdpkwKKAVKEAD---KALKLSVEERL 101

PHD_PHF21A

cd15523

PHD finger found in PHD finger protein 21A (PHF21A); PHF21A (also termed BHC80a or BRAF35-HDAC ...

835-873

1.21e-05

PHD finger found in PHD finger protein 21A (PHF21A); PHF21A (also termed BHC80a or BRAF35-HDAC complex protein BHC80) along with HDAC1/2, CtBP1, CoREST, and BRAF35, is associated with LSD1, a lysine (K)-specific histone demethylase. It inhibits LSD1-mediated histone demethylation in vitro. PHF21A is predominantly present in the central nervous system and spermatogenic cells and is one of the six components of BRAF-HDAC complex (BHC) involved in REST-dependent transcriptional repression of neuron-specific genes in non-neuronal cells. It acts as a scaffold protein in BHC in neuronal as well as non-neuronal cells and also plays a role in spermatogenesis. PHF21A contains a C-terminal plant homeodomain (PHD) finger that is responsible for the binding directly to each of five other components of BHC, and of organizing BHC mediating transcriptional repression.

Pssm-ID: 276998 [Multi-domain] Cd Length: 43 Bit Score: 43.54 E-value: 1.21e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15523     2 CSVCRKSGELLMCDTCSLVYHLDCLDpplKTIPKGMWICPKC 43

HMG-box_HMG20A

cd22017

high mobility group (HMG)-box found in high mobility group protein 20A (HMG20A) and similar ...

432-502

1.48e-05

high mobility group (HMG)-box found in high mobility group protein 20A (HMG20A) and similar proteins; HMG20A, also called HMG box-containing protein 20A, HMG domain-containing protein 1 (HMGXB1), HMG domain-containing protein HMGX1, HMGXB1, or iBRAF, is a chromatin-associated protein involved in neuronal differentiation and maturation. It is required for SNAI1-mediated epithelial to mesenchymal transition. HMG20A acts as an inhibitor of HMG20B.

Pssm-ID: 438833 [Multi-domain] Cd Length: 104 Bit Score: 45.32 E-value: 1.48e-05

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568933611  432 KRGvGSPAGRKKStgSAPRSRKGDSA--AQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd22017     1 KRG-GWSKGRKRK--KPLRDSNAPKAplTGYVRFMNERREQLRAERPDVPFPEITRMLGNEWSKLPAEEKQRY 70

PHD1_CHD_II

cd15531

PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD ...

1243-1286

1.73e-05

Pssm-ID: 277006 [Multi-domain] Cd Length: 43 Bit Score: 42.97 E-value: 1.73e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 568933611 1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLG--LGKRPFGKWECPwhHC 1286
Cdd:cd15531     2 CEVCQQGGEIILCDT--CPRAYHLVCLDpeLEKAPEGKWSCP--HC 43

PHD1_NSD1_2

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; ...

835-874

1.82e-05

Pssm-ID: 277118 Cd Length: 43 Bit Score: 43.23 E-value: 1.82e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEA-CPAAFHPDCLNI-EMPDGSWFCNDCR 874
Cdd:cd15648     2 CQVCEKPGELLLCEGqCCGAFHLDCIGLsEMPSGKFICDECI 43

PWWP_BRPF

cd05839

PWWP domain found in the bromodomain and PHD finger-containing (BRPF) protein family; The BRPF ...

220-299

1.88e-05

PWWP domain found in the bromodomain and PHD finger-containing (BRPF) protein family; The BRPF family of proteins includes BRPF1, BRD1/BRPF2, and BRPF3. They are scaffold proteins that form monocytic leukemic zinc-finger protein (MOZ)/MOZ-related factor (MORF) H3 histone acetyltransferase (HAT) complexes with other regulatory subunits, such as inhibitor of growth 5 (ING5) and Esa1-associated factor 6 ortholog (EAF6). BRPF proteins have multiple domains, including a plant homeodomain (PHD) zinc finger followed by a non-canonical extended PHD (ePHD) finger, C2HC5HC2H, a bromodomain, and a proline-tryptophan-tryptophan-proline (PWWP) domain. The PHD finger binds to lysine 4 of histone H3 (K4H3), the bromodomain interacts with acetylated lysines on N-terminal tails of histones and other proteins, and the PWWP domain shows histone-binding and chromatin association properties.

Pssm-ID: 438964 Cd Length: 106 Bit Score: 44.95 E-value: 1.88e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  220 YNVGDLVWSKVSGYPWWPCMV--SADPLLHN------HTKLKGQKKSARQYHVQFFGDAPERAWIFEKSLVAFEGEEQFE 291
Cdd:cd05839     1 LEPGDLVWAKCRGYPWYPAEIvdPKDPKEGNgvpipvPPDRVLKKSNEKLYLVLFFDAKRTWGWLPRNKLRPLGVDEELD 80


                  ....*...
gi 568933611  292 KLCQESAK 299
Cdd:cd05839    81 KLKLSEAK 88

HMG-box_ABF2-like_rpt1

cd22010

first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...

457-506

2.98e-05

first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ARS-binding factor 2 (ABF2) and similar proteins; ABF2 is a close relative of the nuclear, chromosomal high-mobility group protein HMG1 in yeast mitochondria. It specifically binds to the autonomously replicating sequence 1 (ARS1). It might play a positive role in gene expression and replication. ABF2 contains two HMG-box domains. This model corresponds to the first one.

Pssm-ID: 438826 [Multi-domain] Cd Length: 68 Bit Score: 43.29 E-value: 2.98e-05

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 568933611  457 AAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKF 506
Cdd:cd22010     5 LSAYFLYFQEHRSDFVKENPDAKMTEISKIGGDKWKNLSADDKKKYEDDF 54

PHD_PHF21B

cd15524

PHD finger found in PHD finger protein 21B (PHF21B); PHF21B is a plant homeodomain (PHD) ...

834-873

3.59e-05

PHD finger found in PHD finger protein 21B (PHF21B); PHF21B is a plant homeodomain (PHD) finger-containing protein whose biological function remains unclear. It shows high sequence similarity with PHF21A, which is associated with LSD1, a lysine (K)-specific histone demethylase and inhibits LSD1-mediated histone demethylation in vitro. PHD fingers can recognize the unmodified and modified histone H3 tail, and some have been found to interact with non-histone proteins.

Pssm-ID: 276999 [Multi-domain] Cd Length: 43 Bit Score: 42.19 E-value: 3.59e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEM---PDGSWFCNDC 873
Cdd:cd15524     1 HCAACKRGGNLQPCGTCPRAYHLDCLDPPLktaPKGVWVCPKC 43

PHD4_NSD

cd15567

PHD finger 4 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

1243-1281

4.21e-05

Pssm-ID: 277042 [Multi-domain] Cd Length: 41 Bit Score: 41.85 E-value: 4.21e-05

                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568933611 1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLGLGKRPFGKWEC 1281
Cdd:cd15567     2 CFICSEGGSLICCES--CPASFHPECLGLEPPPEGKFYC 38

PWWP_DNMT3

cd05835

PWWP domain found in the DNA (cytosine-5)-methyltransferase 3 (DNMT3) family; The DNMT3 family ...

221-269

4.43e-05

PWWP domain found in the DNA (cytosine-5)-methyltransferase 3 (DNMT3) family; The DNMT3 family includes DNMT3A and DNMT3B, which are required for genome-wide de novo methylation and is essential for the establishment of DNA methylation patterns during development. DNMT3A, also called DNA methyltransferase HsaIIIA, DNA MTase HsaIIIA, or M.HsaIIIA, modifies DNA in a non-processive manner and also methylates non-CpG sites. It may preferentially methylate DNA linker between 2 nucleosomal cores and is inhibited by histone H1. DNMT3A is recruited to trimethylated 'Lys-36' of histone H3 (H3K36me3) sites. DNMT3B, also called DNA methyltransferase HsaIIIB, DNA MTase HsaIIIB, or M.HsaIIIB, may preferentially methylate nucleosomal DNA within the nucleosome core region. DNMT3B may function as a transcriptional co-repressor by associating with CBX4 and independently of DNA methylation. Members of this family contains a PWWP domain that is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by DNMT3B is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of DNMT3B has been identified in patients with ICF (immunodeficiency, centromeric instability, and facial anomalie) syndrome , a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA.

Pssm-ID: 438960 [Multi-domain] Cd Length: 89 Bit Score: 43.40 E-value: 4.43e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 568933611  221 NVGDLVWSKVSGYPWWPCMVsadpLLHNHTKLKGQKKSARQyhVQFFGD 269
Cdd:cd05835     1 KIGDLVWAKLKGSPWWPGIV----VSHKDCGQKPPAEGSVW--VFWFGD 43

SET_KMT5C

cd19185

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5C (KMT5C) ...

1075-1194

5.30e-05

SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5C (KMT5C) and similar proteins; KMT5C (also termed lysine N-methyltransferase 5C, lysine-specific methyltransferase 5C, suppressor of variegation 4-20 homolog 2, Su(var)4-20 homolog 2 or Suv4-20h2) is a histone methyltransferase that specifically trimethylates 'Lys-20' of histone H4 (H4K20me3). It plays a central role in the establishment of constitutive heterochromatin in pericentric heterochromatin regions.

Pssm-ID: 380962 Cd Length: 142 Bit Score: 44.65 E-value: 5.30e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1075 GWGLVAKRDIRKGEFVNEYVG---ELIDEEECMARikyAHENDITHFYMlTIDKDRIIDAGPkgnySRFMNHSCQPNCET 1151
Cdd:cd19185    19 GAKIVSTRAWKKNEKLELLVGciaELREEDEGLLR---AGENDFSIMYS-TRKRSAQLWLGP----AAFINHDCKPNCKF 90

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 568933611 1152 LkwTVNGDTRVgLFAVCDIPAGTELTFNYNLDCLGNEKTVCRC 1194
Cdd:cd19185    91 V--PADGNAAC-VKVLRDIEPGDEVTCFYGEGFFGEKNEHCEC 130

SET_KMT2E

cd19182

SET domain found in inactive histone-lysine N-methyltransferase 2E (KMT2E) and similar ...

1078-1183

5.46e-05

SET domain found in inactive histone-lysine N-methyltransferase 2E (KMT2E) and similar proteins; KMT2E (also termed inactive lysine N-methyltransferase 2E, myeloid/lymphoid or mixed-lineage leukemia protein 5 (MLL5)) plays a key role in hematopoiesis, spermatogenesis and cell cycle progression. It associates with chromatin regions downstream of transcriptional start sites of active genes and thus regulates gene transcription. Lack of key residues in the SET domain as well as the presence of an unusually large loop in the SET-I subdomain preclude the interaction of MLL5 SET with its cofactor and substrate thus making MLL5 devoid of any in vitro methyltransferase activity on full-length histones and histone H3 peptide.

Pssm-ID: 380959 Cd Length: 129 Bit Score: 44.11 E-value: 5.46e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611 1078 LVAKRDIRKGEFVNEYVGELIDEEECMAR-IKYAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNHSCQPNCETLKWTV 1156
Cdd:cd19182    21 LKAAKDLPPDTLIIEYRGKFMLREQFEANgYFFKRPYPFVLFYSKFHGLEMCVDARTFGNEARFIRRSCTPNAEVRHVIE 100

                          90       100
                  ....*....|....*....|....*..
gi 568933611 1157 NGDTRVGLFAVCDIPAGTELTFNYNLD 1183
Cdd:cd19182   101 DGTIHLYIYSIRSIPKGTEITIAFDFD 127

PWWP_PWWP2A

cd20152

PWWP domain found in PWWP domain-containing protein 2A (PWWP2A); PWWP2A is a H2A.Z-specific ...

222-320

5.71e-05

PWWP domain found in PWWP domain-containing protein 2A (PWWP2A); PWWP2A is a H2A.Z-specific chromatin binding protein which may play an important role in the neural crest stem cell migration and differentiation during early development. It is also required for proper mitosis progression. PWWP2A and its paralog PWWP2B form a stable complex with NuRD subunits MTA1/2/3:HDAC1/2:RBBP4/7, but not with MBD2/3, p66alpha/beta, and CHD3/4. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438980 Cd Length: 122 Bit Score: 44.23 E-value: 5.71e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  222 VGDLVWSKVSGYPWWPCMVSADPLLHNHTKLKgQKKSARqyhVQFFGdAPERAWIFEKSLVAF--EGEEQFEKLCQESAK 299
Cdd:cd20152    22 VGDIVWAKIYGFPWWPARILAITVSRKDNGLL-VRQEAR---ISWFG-SPTTSFLALSQLAPFleNFQSRFNKKRKGLYR 96

                          90       100
                  ....*....|....*....|.
gi 568933611  300 QAPTKAEKIKllKPISGRLRA 320
Cdd:cd20152    97 KAITEAAKAA--KQLTPEVRA 115

PWWP_BS69

cd20159

PWWP domain found in protein BS69 and similar proteins; Protein BS69, also called zinc finger ...

224-280

5.79e-05

PWWP domain found in protein BS69 and similar proteins; Protein BS69, also called zinc finger MYND domain-containing protein 11 (ZMYND11 or ZMY11), is a ubiquitously expressed nuclear protein acting as a transcriptional co-repressor in association with various transcription factors. It was originally identified as an adenovirus 5 E1A-binding protein that inhibits E1A transactivation, as well as c-Myb transcription. It also mediates repression, at least in part, through interaction with the co-repressor N-CoR. Moreover, it interacts with Toll-interleukin 1 receptor domain (TIR)-containing adaptor molecule-1 (TICAM-1, also named TRIF) to facilitate NF-kappaB activation and type I IFN induction. It associates with PIAS1, a SUMO E3 enzyme, and Ubc9, a SUMO E2 enzyme, and plays an inhibitory role in muscle and neuronal differentiation. Moreover, BS69 regulates Epstein-Barr virus (EBV) latent membrane protein 1 (LMP1)/C-terminal activation region 2 (CTAR2)-mediated NF-kappaB activation by interfering with the complex formation between TNFR-associated death domain protein (TRADD) and LMP1/CTAR2. It also cooperates with tumor necrosis factor receptor (TNFR)-associated factor 3 (TRAF3) in the regulation of EBV-derived LMP1/CTAR1-induced NF-kappaB activation. Furthermore, BS69 is involved in the p53-p21Cip1-mediated senescence pathway. BS69 contains a plant homeodomain (PHD) finger, a bromodomain, a proline-tryptophan-tryptophan-proline (PWWP) domain, and a MYeloid translocation protein 8, Nervy and DEAF-1 (MYND) domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438987 Cd Length: 85 Bit Score: 42.97 E-value: 5.79e-05

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 568933611  224 DLVWSKVSGYPWWPCMVsadpllhnhtklkgQKKSARQYHVQFFGDAPERAWIFEKS 280
Cdd:cd20159     8 ELVWAKQKGFPYWPAKV--------------IQKEDNQYDVRFFGGHHQRAWIPKEN 50

HMG-box_UBF1_rpt4

cd22001

fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ...

463-516

6.91e-05

fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar proteins; UBF1, also called UBTF, nucleolar transcription factor 1, or auto-antigen NOR-90, is a nucleolar transcription factor that recognizes the ribosomal RNA gene promoter and activates transcription mediated by RNA polymerase I through cooperative interactions with the transcription factor SL1/TIF-IB complex. It binds specifically to the upstream control element. UBF1 contains six HMG-box domains. This model corresponds to the fourth one.

Pssm-ID: 438817 [Multi-domain] Cd Length: 66 Bit Score: 42.28 E-value: 6.91e-05

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  463 FCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFSLMISAQSEE 516
Cdd:cd22001    13 YSKEKRSKLKKKHPELSEQELTRLLAKKYNELPDKKKAKYKKKEALAKAEYEKK 66

PHD1_AIRE

cd15539

PHD finger 1 found in autoimmune regulator (AIRE); AIRE, also termed autoimmune ...

671-711

8.32e-05

Pssm-ID: 277014 [Multi-domain] Cd Length: 43 Bit Score: 41.28 E-value: 8.32e-05

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  671 CQLCEKTGSLLLCEGpCCGAFHLACLG--LSRRPEGRFTCTEC 711
Cdd:cd15539     2 CAVCGDGGELLCCDG-CPRAFHLACLVppLTLIPSGTWRCSSC 43

NHP6B

COG5648

Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];

416-600

9.23e-05

Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];

Pssm-ID: 227935 [Multi-domain] Cd Length: 211 Bit Score: 45.24 E-value: 9.23e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  416 PGTDKSTPPKMAeaePKRGVGSpagRKKSTGSAPRsrKGDSAaqFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLN 495
Cdd:COG5648    44 PLQQLLTKPRKK---TKSKRLV---RKKKDPNGPK--RPLSA--YFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELT 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  496 EKQKARYNTKFSLMISA-QSEEDSGNgngKKRSHtKRADDPAEdvdvEDAPRkrlradkhsLRKQRETITDKTARTSSYK 574
Cdd:COG5648   114 DEEKEPYYKEANSDRERyQREKEEYN---KKLPN-KAPIGPFI----ENEPK---------IRPKVEGPSPDKALVEETK 176

                         170       180
                  ....*....|....*....|....*.
gi 568933611  575 AIEAASSLKSQAATKNLSDACKPLKK 600
Cdd:COG5648   177 IISKAWSELDESKKKKYIDKYKKLKE 202

HMG-box_SOX

cd22004

high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family ...

460-502

1.14e-04

high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family transcription factors; The SOX gene family of transcription factors are characterized by the evolutionarily conserved SRY-type HMG box, which is a DNA binding domain that binds the minor groove of DNA on a common consensus site, (A/T)(A/T)CAA(A/T)G but with different levels of efficiency. Members include SRY and its homologs identified in mammals that can be subdivided into 8 groups (A, B1, B2, C, D, E, F, G, H). They are involved in embryonic development, regulating processes such as cell differentiation, maintenance of stemness, sex determination, and development of the central nervous, haematopoietic and other organ systems. The SOX gene family has a crucial role in carcinogenesis and cancer progression.

Pssm-ID: 438820 [Multi-domain] Cd Length: 75 Bit Score: 41.76 E-value: 1.14e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd22004     9 FMVWSQQERKKIAKQNPKLHNSEISKILGKEWKKLTEEEKRPY 51

PWWP_NSD_rpt1

cd20144

first PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

883-940

1.31e-04

Pssm-ID: 438972 Cd Length: 114 Bit Score: 42.69 E-value: 1.31e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568933611  883 DIIWVKLGNYRWWPAEVC-HPKNvpPNIQKMK----HEIGEFPVFFFGSKD-YYWTHQARVFPY 940
Cdd:cd20144     3 DLVWAKVSGHPWWPCMVTyDPES--GLYTKIKgsggRTYRQYHVQFFGDNGeRGWVSEKSLMPF 64

PWWP_AtATX3-like

cd20143

PWWP domain found in Arabidopsis thaliana histone-lysine N-methyltransferase trithorax-like ...

223-335

1.96e-04

Pssm-ID: 438971 [Multi-domain] Cd Length: 100 Bit Score: 41.97 E-value: 1.96e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  223 GDLVWSKVSGYPWWPCMVS-----ADPLLHNHtklkgqKKSARqyHVQFFGDAPER--AWIFEKSLVAFegeeqFEKLcq 295
Cdd:cd20143     3 GDLVWAKVGTHPFWPARVVepaeqAEEVRRRC------VPGSL--CVYFFGPGGSRdyGWVRRSMIFPF-----TDDL-- 67

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 568933611  296 ESAKQAPTKAEKIkllkpisgrlRAQWEMGIVQAEEAASM 335
Cdd:cd20143    68 ARFQTQKIKNKKR----------PQEFQEALEEAKLADAG 97

PWWP_NSD_rpt2

cd05838

second PWWP domain found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

222-268

2.13e-04

Pssm-ID: 438963 [Multi-domain] Cd Length: 96 Bit Score: 41.46 E-value: 2.13e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 568933611  222 VGDLVWSKVSGYPWWPCMVsadpLLHNHTKLKGQKKSAR--QYHVQFFG 268
Cdd:cd05838     2 YGDIVWVKLGNYRWWPAEI----LHPREVPDNIQSLPHPpgEFPVRFFG 46

PWWP_NSD3_rpt1

cd20163

first PWWP domain found in nuclear SET domain-containing protein 3 (NSD3) and similar proteins; ...

880-940

2.41e-04

Pssm-ID: 438991 Cd Length: 130 Bit Score: 42.61 E-value: 2.41e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568933611  880 HFQDIIWVKLGNYRWWPAEV-CHPK-NVPPNIQKMKHEigEFPVFFFGSK-DYYWTHQARVFPY 940
Cdd:cd20163     2 QVGDLVWSKVGTYPWWPCMVsSDPQlEVHTKINTRGAR--EYHVQFFSSQpERAWVHEKRVREY 63

HMG-box_AtHMGB6-like_rpt3

cd22008

third high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...

457-516

2.73e-04

third high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 6 (HMGB6) and similar proteins; HMGB6, also called nucleosome/chromatin assembly factor group D 06 (or D 6), WRKY transcription factor 53 (WRKY53), or WRKY DNA-binding protein 53, is a master regulator of age-induced leaf senescence. It acts in a complex transcription factor signaling network regulating senescence specific gene expression; hydrogen peroxide might be involved in signal transduction. The subfamily also includes Arabidopsis thaliana HMGB13 (also known as nucleosome/chromatin assembly factor group D 13). Both HMGB6 and HMGB13 contain three HMG-box domains. This model corresponds to the third one.

Pssm-ID: 438824 [Multi-domain] Cd Length: 78 Bit Score: 40.71 E-value: 2.73e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  457 AAQFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFSLMISAQSEE 516
Cdd:cd22008    14 ASSYLLFGKEYRKKLQEERPGANNATVTALISLKWKELGEEEKQVYNDKAAVLMEKYKKE 73

PWWP_PRKCBP1

cd20160

PWWP domain found in protein kinase C-binding protein 1 (PRKCBP1) and similar proteins; ...

225-276

2.91e-04

PWWP domain found in protein kinase C-binding protein 1 (PRKCBP1) and similar proteins; PRKCBP1, also called cutaneous T-cell lymphoma-associated antigen se14-3 (CTCL-associated antigen se14-3), Rack7, or zinc finger MYND domain-containing protein 8 (ZMYND8), is a novel receptor for activated C-kinase (RACK)-like protein that may play an important role in the activation and regulation of PKC-beta I, and the PKC signaling cascade. It also has been identified as a formin homology-2-domain containing protein 1 (FHOD1)-binding protein that may be involved in FHOD1-regulated actin polymerization and transcription. Moreover, PRKCBP1 may function as a REST co-repressor 2 (RCOR2) interacting factor. They form a RCOR2/ZMYND8 complex which might be involved in the regulation of neural differentiation. PRKCBP1 contains a plant homeodomain (PHD) finger, a bromodomain, and a proline-tryptophan-tryptophan-proline (PWWP) domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438988 Cd Length: 91 Bit Score: 41.01 E-value: 2.91e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 568933611  225 LVWSKVSGYPWWPCmvsadpllhnhtklKGQKKSARQYHVQFFGDApERAWI 276
Cdd:cd20160     9 LVWAKLKGFPFWPA--------------KALRVNNGQVDVRFFGAH-DRAWV 45

HMG-box_HMG20B

cd22018

high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar ...

460-502

3.26e-04

high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar proteins; HMG20B, also called SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related, SMARCE1-related protein (SMARCE1R), BRCA2-associated factor 35 (BRAF35), HMG box-containing protein 20B, HMG domain-containing protein 2 (HMGXB2), HMG domain-containing protein HMGX2, Sox-like transcriptional factor, or structural DNA-binding protein BRAF35, is a DNA binding factor that acts as a repressor of erythroid differentiation. It is required for correct progression through the G2 phase of the cell cycle and entry into mitosis. It is also required for RCOR1/CoREST mediated repression of neuronal specific gene promoters. HMG20B is a core subunit of the Lys-specific demethylase 1/REST co-repressor 1 (LSD1-CoREST) histone demethylase complex.

Pssm-ID: 438834 [Multi-domain] Cd Length: 85 Bit Score: 40.73 E-value: 3.26e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd22018     9 YVRFLNERREQIRTQHPDLPFPEITKMLGAEWSKLQPHEKQRY 51

PHD5_NSD2

PHD finger 5 found in nuclear SET domain-containing protein 2 (NSD2); NSD2, also termed ...

671-708

3.45e-04

Pssm-ID: 277130 Cd Length: 43 Bit Score: 39.53 E-value: 3.45e-04

                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568933611  671 CQLCEKTGSLLLCEGP-CCGAFHLACLGLSRRPEGRFTC 708
Cdd:cd15660     2 CFRCGDGGQLVLCDRKsCTKAYHLSCLGLTKRPFGKWEC 40

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

669-711

4.15e-04

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 39.50 E-value: 4.15e-04

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*.
gi 568933611    669 YVCQLCEKTGSLLLCEGpCCGAFHLACLGL---SRRPEGRFTCTEC 711
Cdd:smart00249    3 SVCGKPDDGGELLQCDG-CDRWYHQTCLGPpllEEEPDGKWYCPKC 47

PHD_RSF1

cd15543

PHD finger found in Remodeling and spacing factor 1 (Rsf-1); Rsf-1, also termed HBV ...

835-873

4.30e-04

PHD finger found in Remodeling and spacing factor 1 (Rsf-1); Rsf-1, also termed HBV pX-associated protein 8, or Hepatitis B virus X-associated protein alpha (HBxAPalpha), or p325 subunit of RSF chromatin-remodeling complex, is a novel nuclear protein with histone chaperon function. It is a subunit of an ISWI chromatin remodeling complex, remodeling and spacing factor (RSF), and plays a role in mediating ATPase-dependent chromatin remodeling and conferring tumor aggressiveness in common carcinomas. As an ataxia-telangiectasia mutated (ATM)-dependent chromatin remodeler, Rsf-1 facilitates DNA damage checkpoints and homologous recombination repair. It regulates the mitotic spindle checkpoint and chromosome instability through the association with serine/threonine kinase BubR1 (BubR1) and Hepatitis B virus (HBV) X protein (HBx) in the chromatin fraction during mitosis. It also interacts with cyclin E1 and promotes tumor development. Rsf-1 contains a plant homeodomain (PHD) finger.

Pssm-ID: 277018 [Multi-domain] Cd Length: 46 Bit Score: 39.17 E-value: 4.30e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15543     5 CGLSDHPEWILLCDRCDAGYHTACLRpplMIIPDGNWFCPPC 46

PHD5_NSD1

cd15659

PHD finger 5 found in nuclear receptor-binding SET domain-containing protein 1 (NSD1); NSD1, ...

835-870

5.13e-04

Pssm-ID: 277129 Cd Length: 43 Bit Score: 39.16 E-value: 5.13e-04

                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568933611  835 CFVCSKGGSLLCCE--ACPAAFHPDCLNI-EMPDGSWFC 870
Cdd:cd15659     2 CFSCGDGGQLVSCKkpGCPKVYHADCLNLtKRPAGKWEC 40

PHD_BS69

cd15537

PHD finger found in protein BS69; Protein BS69, also termed zinc finger MYND domain-containing ...

834-873

5.20e-04

PHD finger found in protein BS69; Protein BS69, also termed zinc finger MYND domain-containing protein 11 (ZMYND11 or ZMY11), is a ubiquitously expressed nuclear protein acting as a transcriptional co-repressor in association with various transcription factors. It was originally identified as an adenovirus 5 E1A-binding protein that inhibits E1A transactivation, as well as c-Myb transcription. It also mediates repression, at least in part, through interaction with the co-repressor N-CoR. Moreover, it interacts with Toll-interleukin 1 receptor domain (TIR)-containing adaptor molecule-1 (TICAM-1, also named TRIF) to facilitate NF-kappaB activation and type I IFN induction. It associates with PIAS1, a SUMO E3 enzyme, and Ubc9, a SUMO E2 enzyme, and plays an inhibitory role in muscle and neuronal differentiation. Moreover, BS69 regulates Epstein-Barr virus (EBV) latent membrane protein 1 (LMP1)/C-terminal activation region 2 (CTAR2)-mediated NF-kappaB activation by interfering with the complex formation between TNFR-associated death domain protein (TRADD) and LMP1/CTAR2. It also cooperates with tumor necrosis factor receptor (TNFR)-associated factor 3 (TRAF3) in the regulation of EBV-derived LMP1/CTAR1-induced NF-kappaB activation. Furthermore, BS69 is involved in the p53-p21Cip1-mediated senescence pathway. BS69 contains a plant homeodomain (PHD) finger, a bromodomain, a proline-tryptophan-tryptophan-proline (PWWP) domain, and a Myeloid translocation protein 8, Nervy and DEAF-1 (MYND) domain.

Pssm-ID: 277012 Cd Length: 43 Bit Score: 38.86 E-value: 5.20e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  834 WCFVCSKGGSLLCCEACPAAFHPDCLNIEMP---DGSWFCNDC 873
Cdd:cd15537     1 YCFECHAPGEVLPCSGCFRVYHSDCLSEDFRpdsTSHWTCPVC 43

PHD1_CHD_II

cd15531

PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins; Class II CHD ...

671-711

5.30e-04

Pssm-ID: 277006 [Multi-domain] Cd Length: 43 Bit Score: 39.12 E-value: 5.30e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  671 CQLCEKTGSLLLCEgPCCGAFHLACLG--LSRRPEGRFTCTEC 711
Cdd:cd15531     2 CEVCQQGGEIILCD-TCPRAYHLVCLDpeLEKAPEGKWSCPHC 43

PWWP_PSIP

cd20151

PWWP domain found in PC4 and SFRS1-interacting protein (PSIP); PSIP, also called ...

883-942

5.41e-04

PWWP domain found in PC4 and SFRS1-interacting protein (PSIP); PSIP, also called CLL-associated antigen KW-7, dense fine speckles 70 kDa protein (DFS 70), lens epithelium-derived growth factor (LEDGF), or transcriptional coactivator p75/p52, acts as a transcriptional coactivator involved in neuroepithelial stem cell differentiation and neurogenesis. It contains a PWWP domain, which is necessary for DNA binding.

Pssm-ID: 438979 [Multi-domain] Cd Length: 88 Bit Score: 40.35 E-value: 5.41e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVchpKNVPPNiqKMKHEIGEFPVFFFGSKDYYWTHQARVFPYME 942
Cdd:cd20151     5 DLIFAKMKGYPHWPARV---DEVPDG--AVKPPTNKLPIFFFGTHETAFLGPKDIFPYSE 59

HMG-box_SMARCE1

cd21983

high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent ...

460-507

7.11e-04

high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 (SMARCE1) and similar proteins; SMARCE1, also called BRG1-associated factor 57 (BAF57), is a ubiquitously expressed protein involved in transcriptional activation and repression of select genes by chromatin remodeling. It is a component of SWI/SNF chromatin remodeling complexes that carry out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner. SMARCE1 has a single HMG domain that displays non-specific DNA-binding characteristics. It also contains a kinesin-like coiled-coil (KLCC) domain.

Pssm-ID: 438799 [Multi-domain] Cd Length: 73 Bit Score: 39.59 E-value: 7.11e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFS 507
Cdd:cd21983    12 YMRYSRKVWDQVKASNPDLKLWEIGKIIGQMWRELSDEEKQEYIEEYE 59

PWWP_PWWP2B

cd20153

PWWP domain found in PWWP domain-containing protein 2B (PWWP2B); PWWP2B is a paralog of PWWP2A, ...

222-268

7.16e-04

PWWP domain found in PWWP domain-containing protein 2B (PWWP2B); PWWP2B is a paralog of PWWP2A, a H2A.Z-specific chromatin binding protein which may play an important role in the neural crest stem cell migration and differentiation during early development. PWWP2A and PWWP2B form a stable complex with NuRD subunits MTA1/2/3:HDAC1/2:RBBP4/7, but not with MBD2/3, p66alpha/beta, and CHD3/4. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438981 Cd Length: 116 Bit Score: 40.71 E-value: 7.16e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568933611  222 VGDLVWSKVSGYPWWPCMVsadpLLHNHTKLKGQKKSARQYHVQFFG 268
Cdd:cd20153    16 VGDIVWGKIHGFPWWPARV----LSISLSQKEDGEPSWQEAKVSWFG 58

PWWP_DNMT3B

cd20155

PWWP domain found in DNA (cytosine-5)-methyltransferase 3B (DNMT3B); DNMT3B, also called DNA ...

222-269

7.41e-04

PWWP domain found in DNA (cytosine-5)-methyltransferase 3B (DNMT3B); DNMT3B, also called DNA methyltransferase HsaIIIB, DNA MTase HsaIIIB, or M.HsaIIIB, is required for genome-wide de novo methylation and is essential for the establishment of DNA methylation patterns during development. It may preferentially methylate nucleosomal DNA within the nucleosome core region. DNMT3B may function as a transcriptional co-repressor by associating with CBX4 and independently of DNA methylation. In tumorigenesis, DNA methylation by DNMT3B is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of DNMT3B has been identified in patients with ICF (immunodeficiency, centromeric instability, and facial anomalies) syndrome, a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA.

Pssm-ID: 438983 Cd Length: 117 Bit Score: 40.62 E-value: 7.41e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 568933611  222 VGDLVWSKVSGYPWWPCMVSAdpllhnhTKLKGQKK-SARQYHVQFFGD 269
Cdd:cd20155     2 IGELVWGKIKGFSWWPAMVVS-------WRATGKRQaSSGMRWLQWFGD 43

HMG-box_CIC-like

cd21990

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a ...

460-512

7.65e-04

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a transcriptional repressor which plays a role in the development of the central nervous system (CNS). In concert with ATXN1 and ATXN1L, CIC is involved in brain development.

Pssm-ID: 438806 [Multi-domain] Cd Length: 78 Bit Score: 39.75 E-value: 7.65e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFSLMISA 512
Cdd:cd21990     9 FMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEA 61

PHD5_NSD3

cd15661

PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3); NSD3, also termed ...

834-870

8.75e-04

Pssm-ID: 277131 Cd Length: 43 Bit Score: 38.41 E-value: 8.75e-04

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 568933611  834 WCFVCSKGGSLLCCEA--CPAAFHPDCLNIEMPD-GSWFC 870
Cdd:cd15661     1 YCFQCGDGGELVMCDKkdCPKAYHLLCLNLTQPPyGKWEC 40

PHD_BAZ2A_like

cd15545

PHD finger found in bromodomain adjacent to zinc finger domain protein 2A (BAZ2A) and 2B ...

835-873

1.01e-03

PHD finger found in bromodomain adjacent to zinc finger domain protein 2A (BAZ2A) and 2B (BAZ2B); BAZ2A, also termed transcription termination factor I-interacting protein 5 (TTF-I-interacting protein 5, or Tip5), or WALp3, is an epigenetic regulator. It has been implicated in epigenetic rRNA gene silencing, as the large subunit of the SNF2h-containing chromatin-remodeling complex NoRC that induces nucleosome sliding in an ATP- and histone H4 tail-dependent fashion. BAZ2A has also been shown to be broadly overexpressed in prostate cancer, to regulate numerous protein-coding genes and to cooperate with EZH2 (enhancer of zeste homolog 2) to maintain epigenetic silencing at genes repressed in prostate cancer metastasis. Its overexpression is tightly associated with a prostate cancer subtype displaying CpG island methylator phenotype (CIMP) in tumors and with prostate cancer recurrence in patients. BAZ2B, also termed WALp4, is a bromodomain-containing protein whose biological role is still elusive. It shows high sequence similarly with BAZ2A. Both BAZ2A and BAZ2B contain a TAM (TIP5/ARBP/MBD) domain, a DDT domain, four AT-hooks, BAZ 1 and BAZ 2 motifs, a WAKZ (WSTF/Acf1/KIAA0314/ZK783.4) motif, a plant homeodomain (PHD) finger, and a bromodomain. BAZ2B also harbors an extra Apolipophorin-III like domain in its N-terminal region.

Pssm-ID: 277020 [Multi-domain] Cd Length: 46 Bit Score: 38.06 E-value: 1.01e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611  835 CFVCSKG---GSLLCCEACPAAFHPDCLNIEM---PDGSWFCNDC 873
Cdd:cd15545     2 CQICRSGdneDQLLLCDGCDRGYHTYCFKPKMtnvPEGDWFCPEC 46

PHD

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in ...

1243-1284

1.09e-03

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 38.35 E-value: 1.09e-03

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*
gi 568933611   1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLGL---GKRPFGKWECPWH 1284
Cdd:smart00249    5 CGKPDDGGELLQCDG--CDRWYHQTCLGPpllEEEPDGKWYCPKC 47

SET_SMYD4

cd10536

SET domain (including iSET domain and post-SET domain) found in SET and MYND domain-containing ...

1140-1180

1.16e-03

SET domain (including iSET domain and post-SET domain) found in SET and MYND domain-containing protein 4 (SMYD4) and similar proteins; SMYD4 functions as a potential tumor suppressor that plays a critical role in breast carcinogenesis at least partly through inhibiting the expression of PDGFR-alpha. In zebrafish, SMYD4 is ubiquitously expressed in early embryos and becomes enriched in the developing heart; mutants show a strong defect in cardiomyocyte proliferation, which lead to a severe cardiac malformation.

Pssm-ID: 380934 [Multi-domain] Cd Length: 218 Bit Score: 41.90 E-value: 1.16e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611 1140 FMNHSCQPNCETlkwTVNGDTrVGLFAVCDIPAGTELTFNY 1180
Cdd:cd10536   153 LLNHSCDPNTIR---SFYGNT-IVVRATRPIKKGEEITICY 189

PWWP_BS69-like

cd05841

PWWP domain found in protein BS69, protein kinase C-binding protein 1 (PRKCBP1) and similar ...

884-968

1.25e-03

PWWP domain found in protein BS69, protein kinase C-binding protein 1 (PRKCBP1) and similar proteins; Protein BS69, also called zinc finger MYND domain-containing protein 11 (ZMYND11 or ZMY11), is a ubiquitously expressed nuclear protein acting as a transcriptional co-repressor in association with various transcription factors. It was originally identified as an adenovirus 5 E1A-binding protein that inhibits E1A transactivation, as well as c-Myb transcription. BS69 is a multi-domain protein, containing bromo, plant homeodomain (PHD), proline-tryptophan-tryptophan-proline (PWWP), and MYeloid translocation protein 8, Nervy and DEAF-1 (MYND) domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. PRKCBP1, also called cutaneous T-cell lymphoma-associated antigen se14-3 (CTCL-associated antigen se14-3), Rack7, or zinc finger MYND domain-containing protein 8 (ZMYND8), is a novel receptor for activated C-kinase (RACK)-like protein that may play an important role in the activation and regulation of PKC-beta I, and the PKC signaling cascade. It also has been identified as a formin homology-2-domain containing protein 1 (FHOD1)-binding protein that may be involved in FHOD1-regulated actin polymerization and transcription. Moreover, PRKCBP1 may function as a REST co-repressor 2 (RCOR2) interacting factor. They form a RCOR2/ZMYND8 complex which might be involved in the regulation of neural differentiation. PRKCBP1 contains a PHD finger, a bromodomain, and a PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438966 Cd Length: 89 Bit Score: 39.30 E-value: 1.25e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  884 IIWVKLGNYRWWPAEVchpknvppniqkMKHEIGEFPVFFFGSKDYYWTHQARVFPY-MEGDRGSRYQGVRGIGRVFKNA 962
Cdd:cd05841     9 LVWVKLDGFPFWPAKV------------MGTKDGQVDVRFFGDYDRAWLPSKNVTLHtREIVSTLPDSSESKDKRTLKKA 76


                  ....*.
gi 568933611  963 LQEAEA 968
Cdd:cd05841    77 IKELER 82

HMG-box_PB1

cd21984

high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, ...

460-502

1.30e-03

high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, also called BRG1-associated factor 180 (BAF180), or polybromo-1D, is a subunit of the PBAF (polybromo/Brg1-associated factor) chromatin-remodeling complex required for kinetochore localization during mitosis and the transcription of estrogen-responsive genes. It is involved in transcriptional activation and repression of select genes by chromatin remodeling. It acts as a negative regulator of cell proliferation.

Pssm-ID: 438800 [Multi-domain] Cd Length: 60 Bit Score: 38.37 E-value: 1.30e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd21984     7 YILFSSEVRKSIKAENPDYSFGEISRLVGTEWRNLPAEKKAEY 49

PWWP_ZCWPW2

cd20146

PWWP domain found in zinc finger CW-type PWWP domain protein 2 (ZCWPW2) and similar proteins; ...

883-967

1.41e-03

Pssm-ID: 438974 Cd Length: 113 Bit Score: 39.97 E-value: 1.41e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVChpkNVPPNIQKMKHEIGEFP----VFFFGSK-DYYWTHQARVFPYMEG--DRGSRYQGVRGI 955
Cdd:cd20146    13 SLVWAKMTGYPRWPAILT---PDPICGEYVDYDEDGEVekyhVEFLGKPhSHAWISAKSVEPYNSNtkTPKCKTKKSKKR 89

                          90
                  ....*....|..
gi 568933611  956 GRVFKNALQEAE 967
Cdd:cd20146    90 KKSYESALEEAE 101

PWWP_HDGFL3

cd20150

PWWP domain found in Hepatoma-derived growth factor-related protein 3 (HDGFL3); HDGFL3, also ...

219-292

1.43e-03

PWWP domain found in Hepatoma-derived growth factor-related protein 3 (HDGFL3); HDGFL3, also called HDGF-related protein 3 (HRP-3), is the only hepatoma-derived growth factor (HDGF)-related protein (HRP) family member whose expression is almost restricted to the nervous tissue. It enhances DNA synthesis and may play a role in cell proliferation. It contains a PWWP domain, which is necessary for DNA binding.

Pssm-ID: 438978 [Multi-domain] Cd Length: 93 Bit Score: 39.27 E-value: 1.43e-03

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568933611  219 KYNVGDLVWSKVSGYPWWPCMVSADPllhnhtklKGQ-KKSARQYHVQFFGdAPERAWIFEKSLVAF-EGEEQFEK 292
Cdd:cd20150     5 EYKAGDLVFAKMKGYPHWPARIDELP--------EGAvKPPANKYPIFFFG-THETAFLGPKDLFPYkEYKDKFGK 71

PHD_SF

cd15489

PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) ...

1243-1284

1.51e-03

Pssm-ID: 276966 [Multi-domain] Cd Length: 48 Bit Score: 37.68 E-value: 1.51e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 568933611 1243 CFRCGDGGQ----LVLCDRkfCTKAYHLSCLGLGKR---PFGKWECPWH 1284
Cdd:cd15489     2 CIVCGKGGDlggeLLQCDG--CGKWFHADCLGPPLSsfvPNGKWICPVC 48

PHD_TIF1_like

cd15541

PHD finger found in the transcriptional intermediary factor 1 (TIF1) family and similar ...

1242-1281

1.55e-03

Pssm-ID: 277016 [Multi-domain] Cd Length: 43 Bit Score: 37.71 E-value: 1.55e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1242 ECFRCGDGGQLVLCDRkfCTKAYHLSCL--GLGKRPFGKWEC 1281
Cdd:cd15541     1 WCAVCQNGGELLCCDK--CPRVFHLDCHipPIPEFPSGEWSC 40

HMG-box_SoxA_SoxB_SoxG

cd22028

high mobility group (HMG)-box found in group A, group B and group G of SRY-related ...

460-502

1.55e-03

high mobility group (HMG)-box found in group A, group B and group G of SRY-related high-mobility group (HMG) box (Sox) transcription factors; This subfamily includes SoxA, SoxB, and SoxG proteins. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors. SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-5 is the only member of group G Sox transcription factors. It is also called SOX-12, SOX-20, SOX-26, or SOX-27. SOX-5 is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types.

Pssm-ID: 438837 [Multi-domain] Cd Length: 76 Bit Score: 38.49 E-value: 1.55e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd22028     9 FMVWSREQRRKIAQENPKMHNSEISKRLGAEWKQLSEDEKRPF 51

PHD1_NSD

cd15564

PHD finger 1 found in nuclear receptor-binding SET domain-containing (NSD) proteins; The ...

835-874

1.71e-03

Pssm-ID: 277039 Cd Length: 43 Bit Score: 37.31 E-value: 1.71e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611  835 CFVCSKGGSLLCCEA-CPAAFHPDCLNI-EMPDGSWFCNDCR 874
Cdd:cd15564     2 CQICEKPGKLLTCEGpCCGHFHLDCLGLsEQPDEPFKCDECT 43

PHD2_PHF10

cd15529

PHD finger 2 found in PHD finger protein 10 (PHF10) and similar proteins; PHF10, also termed ...

1242-1282

1.84e-03

PHD finger 2 found in PHD finger protein 10 (PHF10) and similar proteins; PHF10, also termed BRG1-associated factor 45a (BAF45a), or XAP135, is a ubiquitously expressed transcriptional regulator that is required for maintaining the undifferentiated status of neuroblasts. It contains a SAY (supporter of activation of yellow) domain and two adjacent plant homeodomain (PHD) fingers. This model corresponds to the second PHD finger.

Pssm-ID: 277004 Cd Length: 44 Bit Score: 37.29 E-value: 1.84e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611 1242 ECFRCGDGGQLVLCDRkfCTKAYHLSCLGLGKRPFGKWECP 1282
Cdd:cd15529     4 KCGDPHDEDKMMFCDQ--CDRGYHTFCVGLRSIPDGRWICP 42

PHD_PRKCBP1

cd15538

PHD finger found in protein kinase C-binding protein 1 (PRKCBP1); PRKCBP1, also termed ...

671-711

2.02e-03

Pssm-ID: 277013 Cd Length: 41 Bit Score: 37.31 E-value: 2.02e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 568933611  671 CQLCEKTGSLLLCEGpCCGAFHLACLGLSRRPEGRFTCTEC 711
Cdd:cd15538     2 CWRCHKEGQVLCCSL-CPRVYHKKCLKLTSEPDEDWVCPEC 41

PHD2_KAT6A_6B

cd15527

PHD finger 2 found in monocytic leukemia zinc-finger protein (MOZ) and its factor (MORF); MOZ, ...

835-873

2.09e-03

PHD finger 2 found in monocytic leukemia zinc-finger protein (MOZ) and its factor (MORF); MOZ, also termed histone acetyltransferase KAT6A, YBF2/SAS3, SAS2 and TIP60 protein 3 (MYST-3), or runt-related transcription factor-binding protein 2, or zinc finger protein 220, is a MYST-type histone acetyltransferase (HAT) that functions as a coactivator for acute myeloid leukemia 1 protein (AML1)- and p53-dependent transcription. It possesses intrinsic HAT activity to acetylate both itself and lysine (K) residues on histone H2B, histone H3 (K14) and histone H4 (K5, K8, K12 and K16) in vitro and H3K9 in vivo. MOZ-related factor (MORF), also termed MOZ2, or histone acetyltransferase KAT6B, or MOZ, YBF2/SAS3, SAS2 and TIP60 protein 4 (MYST4), is a ubiquitously expressed transcriptional regulator with intrinsic HAT activity. It can interact with the Runt-domain transcription factor Runx2 and form a tetrameric complex with BRPFs, ING5, and EAF6. Both MOZ and MORF are catalytic subunits of HAT complexes that are required for normal developmental programs, such as hematopoiesis, neurogenesis, and skeletogenesis, and are also implicated in human leukemias. MOZ is also the catalytic subunit of a tetrameric inhibitor of growth 5 (ING5) complex, which specifically acetylates nucleosomal histone H3K14. Moreover, MOZ and MORF are involved in regulating transcriptional activation mediated by Runx2 (or Cbfa1), a Runt-domain transcription factor known to play important roles in T cell lymphomagenesis and bone development, and its homologs. MOZ contains a linker histone 1 and histone 5 domains and two plant homeodomain (PHD) fingers. In contrast, MORF contains an N-terminal region containing two PHD fingers, a putative HAT domain, an acidic region, and a C-terminal Ser/Met-rich domain. The family corresponds to the first PHD finger.

Pssm-ID: 277002 Cd Length: 46 Bit Score: 37.36 E-value: 2.09e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611  835 CFVCSKGG---SLLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15527     2 CSVCQDSGnadNLLFCDACDKGFHMECHDpplTRMPKGKWVCQIC 46

PHD1_PHF12

cd15533

PHD finger 1 found in PHD finger protein 12 (PHF12); PHF12, also termed PHD factor 1 (Pf1), is ...

1243-1286

3.35e-03

Pssm-ID: 277008 [Multi-domain] Cd Length: 45 Bit Score: 36.57 E-value: 3.35e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 568933611 1243 CFRCGDGGQLVLCDRkfCTKAYHLSC----LGLGKRPFGKWECpwHHC 1286
Cdd:cd15533     2 CDSCGEGGDLLCCDR--CPASFHLQCcnppLDEEDLPPGEWLC--HRC 45

PWWP_MUM1-like

cd06080

PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, ...

883-967

3.36e-03

PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, also called PWWP domain-containing DNA repair factor 3A (PWWP3A), or protein expandere (EXPAND1), is a melanoma-associated antigen (MAA) that belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers and involved in the DNA damage response pathway by contributing to the maintenance of chromatin architecture. MUM-1 is recruited to the vicinity of DNA breaks by TP53BP1 and plays an accessory role to facilitate damage-induced chromatin changes and promoting chromatin relaxation. It is required for efficient DNA repair and cell survival following DNA damage. This subfamily also includes mutated melanoma-associated antigen 1-like protein 1 (MUM1L1), also called MUM1-like protein 1, or PWWP domain-containing DNA repair factor 3B (PWWP3B). Its biological function remains unclear. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438967 Cd Length: 90 Bit Score: 38.00 E-value: 3.36e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568933611  883 DIIWVKLGNYRWWPAEVchpKNVPPNIQKMKheigefpVFFFGSKDYYWTHQARVF-----------PYMEGDRGSRYqg 951
Cdd:cd06080     5 DIVWAKYRKYPYWPAVV---KSVYKKPKKAS-------VLFLELPPEKKGIKVSLKklkpfdckekeELLEEGKESPY-- 72

                          90
                  ....*....|....*.
gi 568933611  952 vrgiGRVFKNALQEAE 967
Cdd:cd06080    73 ----SEDFKEAVELAE 84

PHD_BAZ1A_like

cd15544

PHD finger found in bromodomain adjacent to zinc finger domain protein BAZ1A and BAZ1B; BAZ1A, ...

835-873

3.76e-03

PHD finger found in bromodomain adjacent to zinc finger domain protein BAZ1A and BAZ1B; BAZ1A, also termed ATP-dependent chromatin-remodeling protein, or ATP-utilizing chromatin assembly and remodeling factor 1 (ACF1), or CHRAC subunit ACF1, or Williams syndrome transcription factor-related chromatin-remodeling factor 180 (WCRF180), or WALp1, is a subunit of the conserved imitation switch (ISWI)-family ATP-dependent chromatin assembly and remodeling factor (ACF)/chromatin accessibility complex (CHRAC) chromatin remodeling complex, which is required for DNA replication through heterochromatin. It alters the remodeling properties of the ATPase motor protein sucrose nonfermenting-2 homolog (SNF2H). Moreover, BAZ1A and its complexes play important roles in DNA double-strand break (DSB) repair. It is essential for averting improper gene expression during spermatogenesis. It also regulates transcriptional repression of vitamin D3 receptor-regulated genes. BAZ1B, also termed Tyrosine-protein kinase BAZ1B, or Williams syndrome transcription factor (WSTF), or Williams-Beuren syndrome chromosomal region 10 protein, Williams-Beuren syndrome chromosomal region 9 protein, or WALp2, is a multifunctional protein implicated in several nuclear processes, including replication, transcription, and the DNA damage response. BAZ1B/WSTF, together with the imitation switch (ISWI) ATPase, forms a WSTF-ISWI chromatin remodeling complex (WICH), which transiently associates with the human inactive X chromosome (Xi) during late S-phase prior to BRCA1 and gamma-H2AX. Moreover, BAZ1B/WSTF, SNF2h, and nuclear myosin 1 (NM1) forms the chromatin remodeling complex B-WICH that is involved in regulating rDNA transcription. Both BAZ1A and BAZ1B contain a WAC motif, a DDT domain, BAZ 1 and BAZ 2 motifs, a WAKZ (WSTF/Acf1/KIAA0314/ZK783.4) motif, a plant homeodomain (PHD) finger, and a bromodomain.

Pssm-ID: 277019 Cd Length: 46 Bit Score: 36.62 E-value: 3.76e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611  835 CFVCSKGGS---LLCCEACPAAFHPDCLN---IEMPDGSWFCNDC 873
Cdd:cd15544     2 CKVCRKKGDpdnMILCDGCDKAFHLYCLRpalREVPSGDWFCPAC 46

PHD_PHF21A

cd15523

PHD finger found in PHD finger protein 21A (PHF21A); PHF21A (also termed BHC80a or BRAF35-HDAC ...

1243-1282

3.82e-03

Pssm-ID: 276998 [Multi-domain] Cd Length: 43 Bit Score: 36.60 E-value: 3.82e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLG--LGKRPFGKWECP 1282
Cdd:cd15523     2 CSVCRKSGELLMCDT--CSLVYHLDCLDppLKTIPKGMWICP 41

HMG-box_AtSSRP1

cd22013

high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and ...

441-505

3.84e-03

high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and similar proteins; SSRP1, also called facilitates chromatin transcription complex subunit SSRP1, high mobility group B protein 8, nucleosome/chromatin assembly factor group D 08 (or D 8), protein NUCLEAR FUSION DEFECTIVE 8, or recombination signal sequence recognition protein 1, is a component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication, and DNA repair. SSRP1 may bind specifically to double-stranded DNA. It is required for karyogamy during female gametophyte development, when the two polar nuclei fuse to form the diploid central cell nucleus. SSRP1 contains only one HMG-box domain.

Pssm-ID: 438829 [Multi-domain] Cd Length: 80 Bit Score: 37.53 E-value: 3.84e-03

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568933611  441 RKKSTGSAPRsrKGDSAaqFLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd22013     1 KKKKDPNAPK--RALSG--FMFFSLMERENLKKEKPGISFGEVGKVLGEKWKNMSADDKAPYEAK 61

HMG-box_HMGXB4

cd21982

high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar ...

452-505

4.84e-03

high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar proteins; HMGXB4, also called HMG box-containing protein 4, high mobility group protein 2-like 1 (HMG2L1), or protein HMGBCG, is a non-histone chromosomal protein that negatively regulates Wnt/beta-catenin signaling during development. It plays a role in the hematopoietic system.

Pssm-ID: 438798 [Multi-domain] Cd Length: 61 Bit Score: 36.87 E-value: 4.84e-03

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568933611  452 RKGDSAAQflVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTK 505
Cdd:cd21982     2 KKNMSAYQ--VFCKEYRVSIVAEHPGIDFGELSKKLAEVWKQLPEKDKLVWKQK 53

HMG-box_SoxC

cd22029

high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) ...

460-502

4.95e-03

high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxC transcription factors includes three members: SOX4, SOX11 and SOX12. They play key roles, often in redundancy, in multiple developmental pathways, including neurogenesis and skeletogenesis. SOX-4 is a transcriptional activator that promotes neuronal differentiation both in the adult and embryonic neural progenitors. It binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif. SOX-4 is abnormally expressed in various cancers. SOX-11 is a neural transcriptional factor involved in precursor survival, neuronal fate determination, migration and morphogenesis. SOX-12, also called SOX-22, is a transcription factor essential for embryonic development and cell fate determination. It binds to the sequence 5'-AACAAT-3'.

Pssm-ID: 438838 [Multi-domain] Cd Length: 76 Bit Score: 37.03 E-value: 4.95e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARY 502
Cdd:cd22029     9 FMVWSQIERRKIMEQQPDMHNAEISKRLGKRWKLLSDSEKIPF 51

PHD1_NSD1_2

PHD finger 1 found in nuclear receptor-binding SET domain-containing protein NSD1 and NSD2; ...

1243-1281

5.27e-03

Pssm-ID: 277118 Cd Length: 43 Bit Score: 36.30 E-value: 5.27e-03

                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568933611 1243 CFRCGDGGQLVLCDRKfCTKAYHLSCLGLGKRPFGKWEC 1281
Cdd:cd15648     2 CQVCEKPGELLLCEGQ-CCGAFHLDCIGLSEMPSGKFIC 39

PHD_TIF1delta

cd15625

PHD finger found in transcriptional intermediary factor 1 delta (TIF1delta); TIF1delta, also ...

1239-1281

5.50e-03

Pssm-ID: 277095 [Multi-domain] Cd Length: 49 Bit Score: 36.09 E-value: 5.50e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611 1239 SEDECFRCGDGGQLVLCDRkfCTKAYHLSCL--GLGKRPFGKWEC 1281
Cdd:cd15625     1 NEDFCAVCLNGGELLCCDR--CPKVFHLSCHvpALLSFPVGEWVC 43

PHD_ING

cd15505

PHD finger found in the inhibitor of growth (ING) protein family; The ING family includes a ...

678-711

6.00e-03

PHD finger found in the inhibitor of growth (ING) protein family; The ING family includes a group of tumor suppressors, ING1-5, which act as readers and writers of the histone epigenetic code, affecting DNA damage response, chromatin remodeling, cellular senescence, differentiation, cell cycle regulation and apoptosis. They may have a general role in mediating the cellular response to genotoxic stress through binding to and regulating the activities of histone acetyltransferase (HAT) and histone deacetylase (HDAC) chromatin remodeling complexes. All ING proteins contain an N-terminal ING domain and a C-terminal plant homeodomain (PHD) finger.

Pssm-ID: 276980 [Multi-domain] Cd Length: 45 Bit Score: 36.12 E-value: 6.00e-03

                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 568933611  678 GSLLLCEGPCC--GAFHLACLGLSRRPEGRFTCTEC 711
Cdd:cd15505    10 GEMVACDNPNCpiEWFHFECVGLTAKPKGKWYCPEC 45

HMG-box_HBP1

cd21988

high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar ...

460-509

6.69e-03

high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar proteins; HBP1, also called HMG box transcription factor 1, or high mobility group box transcription factor 1, is a transcriptional repressor that binds to the promoter region of target genes. It plays a role in the regulation of the cell cycle and the Wnt pathway. HBP1 binds preferentially to the sequence 5'-TTCATTCATTCA-3'.

Pssm-ID: 438804 [Multi-domain] Cd Length: 69 Bit Score: 36.67 E-value: 6.69e-03

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 568933611  460 FLVFCQKHRDEVVAEHPDASGEEIEELLGSQWSMLNEKQKARYNTKFSLM 509
Cdd:cd21988     7 FMLFAKKYRVEYTQMHPGKDNRAISVILGDRWKKMKNEERRVYTLEAKAL 56

PHD_BAZ1A

cd15627

PHD finger found in bromodomain adjacent to zinc finger domain protein 1A (BAZ1A); BAZ1A, also ...

835-873

6.81e-03

PHD finger found in bromodomain adjacent to zinc finger domain protein 1A (BAZ1A); BAZ1A, also termed ATP-dependent chromatin-remodeling protein, or ATP-utilizing chromatin assembly and remodeling factor 1 (ACF1), or CHRAC subunit ACF1, or Williams syndrome transcription factor-related chromatin-remodeling factor 180 (WCRF180), or WALp1, is a subunit of the conserved imitation switch (ISWI)-family ATP-dependent chromatin assembly and remodeling factor (ACF)/chromatin accessibility complex (CHRAC) chromatin remodeling complex, which is required for DNA replication through heterochromatin. It alters the remodeling properties of the ATPase motor protein sucrose nonfermenting-2 homolog (SNF2H). Moreover, BAZ1A and its complexes play important roles in DNA double-strand break (DSB) repair. It is essential for averting improper gene expression during spermatogenesis. It also regulates transcriptional repression of vitamin D3 receptor-regulated genes. BAZ1A contains a WAC motif, a DDT domain, BAZ 1 and BAZ 2 motifs, a WAKZ (WSTF/Acf1/KIAA0314/ZK783.4) motif, a plant homeodomain (PHD) finger, and a bromodomain.

Pssm-ID: 277097 [Multi-domain] Cd Length: 46 Bit Score: 35.83 E-value: 6.81e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 568933611  835 CFVCSKGG---SLLCCEACPAAFHPDCLNIEM---PDGSWFCNDC 873
Cdd:cd15627     2 CRICRRKGdaeKMLLCDGCDRGHHMYCLRPPLkkvPEGDWFCPDC 46

PHD_RSF1

cd15543

PHD finger found in Remodeling and spacing factor 1 (Rsf-1); Rsf-1, also termed HBV ...

1243-1282

6.92e-03

Pssm-ID: 277018 [Multi-domain] Cd Length: 46 Bit Score: 35.71 E-value: 6.92e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 568933611 1243 CFRCGDGGQLVLCDRkfCTKAYHLSCLG--LGKRPFGKWECP 1282
Cdd:cd15543     5 CGLSDHPEWILLCDR--CDAGYHTACLRppLMIIPDGNWFCP 44

PHD