NCBI Conserved Domain Search

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

395-514

2.23e-35

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: 130.51 E-value: 2.23e-35

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  395 VGDLFWGKVFSYCFWPCMVCPDPLGQIVGNMPSHPQRSSLdnanvpiQVHVRFFADNGRRNWIKPENLLTFAGLKAFDDM 474
Cdd:cd20144    1 VGDLVWAKVSGHPWWPCMVTYDPESGLYTKIKGSGGRTYR-------QYHVQFFGDNGERGWVSEKSLMPFEGKEKFEEL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 24650756  475 REELR---IKHGPKSAKYRQMVPKRTKvvIWRQAIEEAQAMTQ 514
Cdd:cd20144   74 VKELKkkaKKKSKKAKLEKKVKPSRRK--KWEIAVEEAEEALP 114

PHD4_NSD

cd15567

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

1001-1041

7.36e-17

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: 75.36 E-value: 7.36e-17

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKTNESYICEEC 1041
Cdd:cd15567    1 WCFICSEGGSLICCESCPASFHPECLGLEPPPEGKFYCEDC 41

PHD3_NSD

cd15566

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

933-988

1.20e-14

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: 69.38 E-value: 1.20e-14

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 24650756  933 VCHTCVSDDPSGkfqqlgSSKLAKCVRCPATYHQlsKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15566    1 TCATCEASGDGS------SGKLVRCIRCPRAYHA--GCIPAGSKLLNKKLIICPKH 48

AWS

smart00570

associated with SET domains; subdomain of PRESET

1183-1233

5.06e-14

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 67.42 E-value: 5.06e-14

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 24650756    1183 DLSTCNCLP--VDEHPCGpeAGCLNRMLFNECnPEYCKAGSLCENRMFEQRKS 1233
Cdd:smart00570    1 DIMTCECKPtdDDETACG--SDCLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

PHD2_NSD

cd15565

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

867-932

4.61e-11

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: 59.36 E-value: 4.61e-11

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756  867 CVICHQVESpavpstprkedssshtpIEDKLLTCSQPMCGKRFHTSCCKYWPQASSSKHSA-RCPRH 932
Cdd:cd15565    2 CFVCKKLGS-----------------VGGEVFKCSVASCGKFYHEECLKKWPLTTISDSKKfRCPLH 51

Name

Accession

Description

Interval

E-value

SET_NSD

cd19173

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

1233-1375

3.15e-84

Pssm-ID: 380950 [Multi-domain] Cd Length: 142 Bit Score: 271.11 E-value: 3.15e-84

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1233 SPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMN 1312
Cdd:cd19173    1 YPPTEPFKTGDRGWGLRTKRDIKKGDFVIEYVGELIDEEECRRRLKKAHENNITNFYMLTLDKDRIIDAGPKGNLSRFMN 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24650756 1313 HSCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMnNSKKACFCGAKRCSGEIG 1375
Cdd:cd19173   81 HSCQPNCETQKWTVNGDTRVGLFAVRDIPAGEELTFNYNLDCLG-NEKKVCRCGAPNCSGFLG 142

PWWP_NSD_rpt2

cd05838

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

1048-1143

1.28e-43

Pssm-ID: 438963 [Multi-domain] Cd Length: 96 Bit Score: 153.55 E-value: 1.28e-43

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1048 LYGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLFRNY 1127
Cdd:cd05838    1 LYGDIVWVKLGNYRWWPAEILHPREVPDNIQSLPHPPGEFPVRFFGSHDYYWVHRGRVFLFEEGDKGSKEKSKKSLDKSF 80

                         90
                 ....*....|....*.
gi 24650756 1128 TTGVEEASRFLPIIKA 1143
Cdd:cd05838   81 KRALKEANEAFRELKA 96

SET

smart00317

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

1234-1354

8.77e-36

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: 132.07 E-value: 8.77e-36

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756    1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:smart00317    1 NKLEVFKSPGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERPKAYDTDGAKAFYLFDIDSDLCIDARRKGNLARFINH 80

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|.
gi 24650756    1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDD 1354
Cdd:smart00317   81 SCEPNCELLFVEVNGDDRIVIFALRDIKPGEELTIDYGSDY 121

PWWP_NSD_rpt1

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

395-514

2.23e-35

Pssm-ID: 438972 Cd Length: 114 Bit Score: 130.51 E-value: 2.23e-35

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  395 VGDLFWGKVFSYCFWPCMVCPDPLGQIVGNMPSHPQRSSLdnanvpiQVHVRFFADNGRRNWIKPENLLTFAGLKAFDDM 474
Cdd:cd20144    1 VGDLVWAKVSGHPWWPCMVTYDPESGLYTKIKGSGGRTYR-------QYHVQFFGDNGERGWVSEKSLMPFEGKEKFEEL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 24650756  475 REELR---IKHGPKSAKYRQMVPKRTKvvIWRQAIEEAQAMTQ 514
Cdd:cd20144   74 VKELKkkaKKKSKKAKLEKKVKPSRRK--KWEIAVEEAEEALP 114

SET

COG2940

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

1225-1372

6.20e-31

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

Pssm-ID: 442183 [Multi-domain] Cd Length: 134 Bit Score: 118.91 E-value: 6.20e-31

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1225 NRMFEQRKSPrlevvymnERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDenyYFLGVEKDFIIDAGPK 1304
Cdd:COG2940    5 HPRIEVRPSP--------IHGRGVFATRDIPKGTLIGEYPGEVITWAEAERREPHKEPLHT---YLFELDDDGVIDGALG 73

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756 1305 GNLARFMNHSCEPNCEtqkwTVNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCgaKRCSG 1372
Cdd:COG2940   74 GNPARFINHSCDPNCE----ADEEDGRIFIVALRDIAAGEELTYDYGLD--YDEEEYPCRC--PNCRG 133

SET

pfam00856

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

1245-1350

3.89e-27

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: 107.22 E-value: 3.89e-27

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756   1245 GFGLVNREPIAVGDFVIEYVGE-VINHAEFQRRMEQKQ---RDRDENYYF--LGVEKDFIID--AGPKGNLARFMNHSCE 1316
Cdd:pfam00856    1 GRGLFATEDIPKGEFIGEYVEVlLITKEEADKRELLYYdklELRLWGPYLftLDEDSEYCIDarALYYGNWARFINHSCD 80

                           90       100       110
                   ....*....|....*....|....*....|....
gi 24650756   1317 PNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:pfam00856   81 PNCEVRVVYVNGGPRIVIFALRDIKPGEELTIDY 114

PWWP

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

1050-1134

4.54e-24

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: 97.50 E-value: 4.54e-24

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756   1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKT--KSQLFRNY 1127
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVDPEELPENVLKPKKKDGEYLVRFFGDSEFAWVKPKDLKPFDEGDEFEYLKKkkKKKKKKAF 80


                   ....*..
gi 24650756   1128 TTGVEEA 1134
Cdd:pfam00855   81 KKALEEA 87

PHD4_NSD

cd15567

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

1001-1041

7.36e-17

Pssm-ID: 277042 [Multi-domain] Cd Length: 41 Bit Score: 75.36 E-value: 7.36e-17

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKTNESYICEEC 1041
Cdd:cd15567    1 WCFICSEGGSLICCESCPASFHPECLGLEPPPEGKFYCEDC 41

PWWP

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

1049-1105

3.22e-16

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

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 74.30 E-value: 3.22e-16

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756    1049 YGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRV 1105
Cdd:smart00293    3 PGDLVWAKMKGFPWWPALVISPKMTPDNIMKRKSDENLYPVLFFGDKDTAWIPSSKL 59

PWWP

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

396-511

4.64e-15

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 72.07 E-value: 4.64e-15

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756    396 GDLFWGKVFSYCFWPCMVCPdplgqivgnmPSHPQRSSLDNANVPIQVHVRFFADNgRRNWIKPENLLTFAGLKAFDdmr 475
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVD----------PEELPENVLKPKKKDGEYLVRFFGDS-EFAWVKPKDLKPFDEGDEFE--- 66

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 24650756    476 eelrikhgpksakYRQMVPKRTKVVIWRQAIEEAQA 511
Cdd:pfam00855   67 -------------YLKKKKKKKKKKAFKKALEEAEE 89

PHD3_NSD

cd15566

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

933-988

1.20e-14

Pssm-ID: 277041 Cd Length: 48 Bit Score: 69.38 E-value: 1.20e-14

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 24650756  933 VCHTCVSDDPSGkfqqlgSSKLAKCVRCPATYHQlsKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15566    1 TCATCEASGDGS------SGKLVRCIRCPRAYHA--GCIPAGSKLLNKKLIICPKH 48

AWS

smart00570

associated with SET domains; subdomain of PRESET

1183-1233

5.06e-14

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 67.42 E-value: 5.06e-14

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 24650756    1183 DLSTCNCLP--VDEHPCGpeAGCLNRMLFNECnPEYCKAGSLCENRMFEQRKS 1233
Cdd:smart00570    1 DIMTCECKPtdDDETACG--SDCLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

PHD2_NSD

cd15565

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

867-932

4.61e-11

Pssm-ID: 277040 Cd Length: 51 Bit Score: 59.36 E-value: 4.61e-11

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756  867 CVICHQVESpavpstprkedssshtpIEDKLLTCSQPMCGKRFHTSCCKYWPQASSSKHSA-RCPRH 932
Cdd:cd15565    2 CFVCKKLGS-----------------VGGEVFKCSVASCGKFYHEECLKKWPLTTISDSKKfRCPLH 51

AWS

pfam17907

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

1193-1231

2.27e-09

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: 53.97 E-value: 2.27e-09

                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 24650756   1193 DEHPCGPEAGCLNRMLFNECNPEYCKAGSLCENRMFEQR 1231
Cdd:pfam17907    1 DDPPCGCGSDCINRMLFVECTPKTCPCGESCQNQRFQRK 39

PWWP

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

393-462

9.40e-08

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

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 50.04 E-value: 9.40e-08

                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756     393 YQVGDLFWGKVFSYCFWPCMVCPDPLgqivgnMPSHPQRSSLDNanvpIQVHVRFFaDNGRRNWIKPENL 462
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKM------TPDNIMKRKSDE----NLYPVLFF-GDKDTAWIPSSKL 59

PHD

pfam00628

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

1001-1041

9.34e-06

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: 44.02 E-value: 9.34e-06

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 24650756   1001 WCYIC---VKGGELVCCETCPIAVHAHCRNIPIKTNE----SYICEEC 1041
Cdd:pfam00628    1 YCAVCgksDDGGELVQCDGCDDWFHLACLGPPLDPAEipsgEWLCPEC 48

PHD

smart00249

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

1001-1041

1.05e-05

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: 43.74 E-value: 1.05e-05

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 24650756    1001 WCYIC---VKGGELVCCETCPIAVHAHCRNIPIKT---NESYICEEC 1041
Cdd:smart00249    1 YCSVCgkpDDGGELLQCDGCDRWYHQTCLGPPLLEeepDGKWYCPKC 47

Name

Accession

Description

Interval

E-value

SET_NSD

cd19173

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

1233-1375

3.15e-84

Pssm-ID: 380950 [Multi-domain] Cd Length: 142 Bit Score: 271.11 E-value: 3.15e-84

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1233 SPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMN 1312
Cdd:cd19173    1 YPPTEPFKTGDRGWGLRTKRDIKKGDFVIEYVGELIDEEECRRRLKKAHENNITNFYMLTLDKDRIIDAGPKGNLSRFMN 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24650756 1313 HSCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMnNSKKACFCGAKRCSGEIG 1375
Cdd:cd19173   81 HSCQPNCETQKWTVNGDTRVGLFAVRDIPAGEELTFNYNLDCLG-NEKKVCRCGAPNCSGFLG 142

SET_SETD2

cd19172

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

1234-1375

3.96e-58

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: 196.65 E-value: 3.96e-58

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:cd19172    2 AKVEVFRTEKKGWGLRAAEDLPKGTFVIEYVGEVLDEKEFKRRMKEYAREGNRHYYFMALKSDEIIDATKKGNLSRFINH 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24650756 1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWdDLMNNSKKACFCGAKRCSGEIG 1375
Cdd:cd19172   82 SCEPNCETQKWTVNGELRVGFFAKRDIPAGEELTFDYQF-ERYGKEAQKCYCGSPNCRGYIG 142

SET_SETD2-like

cd10531

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

1236-1371

7.95e-54

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: 184.38 E-value: 7.95e-54

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1236 LEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSC 1315
Cdd:cd10531    2 LELFRTEKKGWGVKAKEDIQKGEFIIEYVGEVIDKKEFKERLDEYEELGKSNFYILSLSDDVVIDATRKGNLSRFINHSC 81

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 24650756 1316 EPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLmNNSKKACFCGAKRCS 1371
Cdd:cd10531   82 EPNCETQKWIVNGEYRIGIFALRDIPAGEELTFDYNFVNY-NEAKQVCLCGAQNCR 136

SET_ASH1L

cd19174

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

1236-1376

9.12e-54

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: 184.42 E-value: 9.12e-54

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1236 LEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDrDENYYFLGVEKDFIIDAGPKGNLARFMNHSC 1315
Cdd:cd19174    2 LERFRTEDKGWGVRTKEPIKAGQFIIEYVGEVVSEQEFRRRMIEQYHN-HSHHYCLNLDSGMVIDGYRMGNEARFVNHSC 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 24650756 1316 EPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRCSGEIGG 1376
Cdd:cd19174   81 DPNCEMQKWSVNGVYRIGLFALKDIPAGEELTYDYNFHSFNVEKQQPCKCGSPNCRGVIGG 141

SET_NSD3

cd19212

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

1234-1375

6.72e-50

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: 173.19 E-value: 6.72e-50

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:cd19212    2 PDAEIIKTERRGWGLRTKRSIKKGEFVNEYVGELIDEEECRLRIKRAHENSVTNFYMLTVTKDRIIDAGPKGNYSRFMNH 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24650756 1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLmNNSKKACFCGAKRCSGEIG 1375
Cdd:cd19212   82 SCNPNCETQKWTVNGDVRVGLFALCDIPAGMELTFNYNLDCL-GNGRTECHCGADNCSGFLG 142

SET_NSD2

cd19211

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

1234-1375

2.57e-49

SET domain (including post-SET domain) found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; 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-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. WHSC1 is frequently deleted in Wolf-Hirschhorn syndrome (WHS).

Pssm-ID: 380988 [Multi-domain] Cd Length: 142 Bit Score: 171.71 E-value: 2.57e-49

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:cd19211    2 PETKIIKTEGKGWGLIAKRDIKKGEFVNEYVGELIDEEECMARIKHAHENDITHFYMLTIDKDRIIDAGPKGNYSRFMNH 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24650756 1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLmNNSKKACFCGAKRCSGEIG 1375
Cdd:cd19211   82 SCQPNCETQKWTVNGDTRVGLFAVCDIPAGTELTFNYNLDCL-GNEKTVCRCGAPNCSGFLG 142

SET_NSD1

cd19210

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

1234-1375

1.37e-48

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: 169.72 E-value: 1.37e-48

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:cd19210    2 PEVEIFRTLGRGWGLRCKTDIKKGEFVNEYVGELIDEEECRARIRYAQEHDITNFYMLTLDKDRIIDAGPKGNYARFMNH 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24650756 1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLmNNSKKACFCGAKRCSGEIG 1375
Cdd:cd19210   82 CCQPNCETQKWTVNGDTRVGLFALCDIKAGTELTFNYNLECL-GNGKTVCKCGAPNCSGFLG 142

SET_ASHR3-like

cd19175

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

1235-1375

1.39e-45

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: 160.66 E-value: 1.39e-45

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1235 RLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHS 1314
Cdd:cd19175    1 KMKLVKTEKCGWGLVADEDINAGEFIIEYVGEVIDDKTCEERLWDMKHKGEKNFYMCEIDKDMVIDATFKGNLSRFINHS 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 24650756 1315 CEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKkaCFCGAKRCSGEIG 1375
Cdd:cd19175   81 CDPNCELQKWQVDGETRIGVFAIRDIKKGEELTYDYQFVQFGADQD--CHCGSKNCRGKLG 139

PWWP_NSD_rpt2

cd05838

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

1048-1143

1.28e-43

Pssm-ID: 438963 [Multi-domain] Cd Length: 96 Bit Score: 153.55 E-value: 1.28e-43

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1048 LYGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLFRNY 1127
Cdd:cd05838    1 LYGDIVWVKLGNYRWWPAEILHPREVPDNIQSLPHPPGEFPVRFFGSHDYYWVHRGRVFLFEEGDKGSKEKSKKSLDKSF 80

                         90
                 ....*....|....*.
gi 24650756 1128 TTGVEEASRFLPIIKA 1143
Cdd:cd05838   81 KRALKEANEAFRELKA 96

SET

smart00317

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

1234-1354

8.77e-36

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: 132.07 E-value: 8.77e-36

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756    1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNH 1313
Cdd:smart00317    1 NKLEVFKSPGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERPKAYDTDGAKAFYLFDIDSDLCIDARRKGNLARFINH 80

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|.
gi 24650756    1314 SCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDD 1354
Cdd:smart00317   81 SCEPNCELLFVEVNGDDRIVIFALRDIKPGEELTIDYGSDY 121

PWWP_NSD_rpt1

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

395-514

2.23e-35

Pssm-ID: 438972 Cd Length: 114 Bit Score: 130.51 E-value: 2.23e-35

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  395 VGDLFWGKVFSYCFWPCMVCPDPLGQIVGNMPSHPQRSSLdnanvpiQVHVRFFADNGRRNWIKPENLLTFAGLKAFDDM 474
Cdd:cd20144    1 VGDLVWAKVSGHPWWPCMVTYDPESGLYTKIKGSGGRTYR-------QYHVQFFGDNGERGWVSEKSLMPFEGKEKFEEL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 24650756  475 REELR---IKHGPKSAKYRQMVPKRTKvvIWRQAIEEAQAMTQ 514
Cdd:cd20144   74 VKELKkkaKKKSKKAKLEKKVKPSRRK--KWEIAVEEAEEALP 114

SET_SETMAR

cd10544

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

1186-1372

1.76e-33

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: 130.50 E-value: 1.76e-33

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1186 TCNCLpvdeHPCGP---EAGCLNRMLFN------ECNPEyCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAV 1256
Cdd:cd10544   38 TCSCL----RKYGPnydDDGCLLDFDGKysgpvfECNSM-CKCSESCQNRVVQNGLQFKLQVFKTPKKGWGLRTLEFIPK 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1257 GDFVIEYVGEVINHAEFQRRMeQKQRDRDENYYFlgVEKDF---------IIDAGPKGNLARFMNHSCEPNCETQKWTVN 1327
Cdd:cd10544  113 GRFVCEYAGEVIGFEEARRRT-KSQTKGDMNYII--VLREHlssgkvletFVDPTYIGNIGRFLNHSCEPNLFMVPVRVD 189

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756 1328 C-IHRVGIFAIKDIPVNSELTFNY------------LWDDLMNNSKKACFCGAKRCSG 1372
Cdd:cd10544  190 SmVPKLALFAARDIVAGEELSFDYsgefsnsvesvtLARQDESKSRKPCLCGAENCRG 247

SET_EZH

cd10519

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

1245-1350

3.80e-32

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: 121.58 E-value: 3.80e-32

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd10519   12 GWGLFLKEPIKKDEFIGEYTGELISQDEADRR--GKIYDKYNSSYLFNLNDQFVVDATRKGNKIRFANHSSNPNCYAKVM 89

                         90       100
                 ....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10519   90 MVNGDHRIGIFAKRDIEAGEELFFDY 115

SET_SUV39H

cd10542

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

1211-1372

2.55e-31

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: 123.94 E-value: 2.55e-31

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1211 ECNPeYCKAGSLCENRMFEQRKSPRLEVV-YMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENYY 1289
Cdd:cd10542   65 ECNS-RCKCGPDCPNRVVQRGRKVPLCIFrTSNGRGWGVKTLEDIKKGTFVMEYVGEIITSEEAERR--GKIYDANGRTY 141

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1290 -----FLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKWTVNC----IHRVGIFAIKDIPVNSELTFNYL--WDDLMNN 1358
Cdd:cd10542  142 lfdldYNDDDCEYTVDAAYYGNISHFINHSCDPNLAVYAVWINHldprLPRIAFFAKRDIKAGEELTFDYLmtGTGGSSE 221

                        170       180
                 ....*....|....*....|..
gi 24650756 1359 SKKA--------CFCGAKRCSG 1372
Cdd:cd10542  222 STIPkpkdvrvpCLCGSKNCRK 243

SET

COG2940

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

1225-1372

6.20e-31

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

Pssm-ID: 442183 [Multi-domain] Cd Length: 134 Bit Score: 118.91 E-value: 6.20e-31

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1225 NRMFEQRKSPrlevvymnERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDenyYFLGVEKDFIIDAGPK 1304
Cdd:COG2940    5 HPRIEVRPSP--------IHGRGVFATRDIPKGTLIGEYPGEVITWAEAERREPHKEPLHT---YLFELDDDGVIDGALG 73

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756 1305 GNLARFMNHSCEPNCEtqkwTVNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCgaKRCSG 1372
Cdd:COG2940   74 GNPARFINHSCDPNCE----ADEEDGRIFIVALRDIAAGEELTYDYGLD--YDEEEYPCRC--PNCRG 133

SET_SETD1-like

cd10518

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

1231-1370

2.68e-30

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: 117.31 E-value: 2.68e-30

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1231 RKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENY--YFLGVEKDFIIDAGPKGNLA 1308
Cdd:cd10518   11 RLKERLRVGKSGIHGWGLFAKRPIAAGEMVIEYVGEVIRPIVADKR--EKRYDEEGGGgtYMFRIDEDLVIDATKKGNIA 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24650756 1309 RFMNHSCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNYLW--DDLMnnsKKACFCGAKRC 1370
Cdd:cd10518   89 RFINHSCDPNCYAKIITVDGEKHIVIFAKRDIAPGEELTYDYKFpiEDEE---KIPCLCGAPNC 149

SET_SETD1

cd19169

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

1245-1370

2.14e-29

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: 114.74 E-value: 2.14e-29

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19169   24 DWGLFALEPIAADEMVIEYVGQVIRQSVADEREKRYEAIGIGSSYLFRVDDDTIIDATKCGNLARFINHSCNPNCYAKII 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNY---LWDDlmnnsKKACFCGAKRC 1370
Cdd:cd19169  104 TVESQKKIVIYSKRPIAVNEEITYDYkfpIEDE-----KIPCLCGAPQC 147

SET_SETDB-like

cd10538

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

1208-1350

1.63e-28

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: 114.78 E-value: 1.63e-28

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1208 LFNECNPEyCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQR----- 1282
Cdd:cd10538   64 PIFECNSK-CSCDDDCKNRVVQRGLQARLQVFRTSKKGWGVRSLEFIPKGSFVCEYVGEVITTSEADRRGKIYDKsggsy 142

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756 1283 --DRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPN-------CETQKWTvncIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10538  143 lfDLDEFSDSDGDGEELCVDATFCGNVSRFINHSCDPNlfpfnvvIDHDDLR---YPRIALFATRDILPGEELTFDY 216

SET

pfam00856

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

1245-1350

3.89e-27

Pssm-ID: 459965 [Multi-domain] Cd Length: 115 Bit Score: 107.22 E-value: 3.89e-27

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756   1245 GFGLVNREPIAVGDFVIEYVGE-VINHAEFQRRMEQKQ---RDRDENYYF--LGVEKDFIID--AGPKGNLARFMNHSCE 1316
Cdd:pfam00856    1 GRGLFATEDIPKGEFIGEYVEVlLITKEEADKRELLYYdklELRLWGPYLftLDEDSEYCIDarALYYGNWARFINHSCD 80

                           90       100       110
                   ....*....|....*....|....*....|....
gi 24650756   1317 PNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:pfam00856   81 PNCEVRVVYVNGGPRIVIFALRDIKPGEELTIDY 114

SET_SET1

cd20072

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

1246-1370

2.37e-26

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: 105.97 E-value: 2.37e-26

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1246 FGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKWT 1325
Cdd:cd20072   25 WGLYAMENISAKDMVIEYVGEVIRQQVADEREKRYLRQGIGSSYLFRIDDDTVVDATKKGNIARFINHCCDPNCTAKIIK 104

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 24650756 1326 VNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCGAKRC 1370
Cdd:cd20072  105 VEGEKRIVIYAKRDIAAGEELTYDYKFP--REEDKIPCLCGAPNC 147

SET_EHMT

cd10543

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

1161-1370

8.56e-26

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: 107.42 E-value: 8.56e-26

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1161 PPYVKIKTNKAVPPLRFSQNLEDLSTCNCLPV---DEHPCG--------PEAGCLNR--------MLFnECNPeYCKAGS 1221
Cdd:cd10543    1 PDFLYVTENCETSPLNIDRNITSLQTCSCRDDcssDNCVCGrlsvrcwyDKEGRLLPdfnkldppLIF-ECNR-ACSCWR 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1222 LCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeqkqrdRDENYYFLGVEKD---FI 1298
Cdd:cd10543   79 NCRNRVVQNGIRYRLQLFRTRGMGWGVRALQDIPKGTFVCEYIGELISDSEADSR-------EDDSYLFDLDNKDgetYC 151

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1299 IDAGPKGNLARFMNHSCEPNCETQKWTVNciH------RVGIFAIKDIPVNSELTFNY---LWDdlMNNSKKACFCGAKR 1369
Cdd:cd10543  152 IDARRYGNISRFINHLCEPNLIPVRVFVE--HqdlrfpRIAFFASRDIKAGEELGFDYgekFWR--IKGKYFTCRCGSPK 227


                 .
gi 24650756 1370 C 1370
Cdd:cd10543  228 C 228

PWWP

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

1050-1134

4.54e-24

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 97.50 E-value: 4.54e-24

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756   1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKT--KSQLFRNY 1127
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVDPEELPENVLKPKKKDGEYLVRFFGDSEFAWVKPKDLKPFDEGDEFEYLKKkkKKKKKKAF 80


                   ....*..
gi 24650756   1128 TTGVEEA 1134
Cdd:pfam00855   81 KKALEEA 87

SET_SUV39H_DIM5-like

cd19473

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

1195-1372

1.57e-23

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: 102.01 E-value: 1.57e-23

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1195 HPCGPEAGCLNRMLFN------ECNpEYCKAGSLCENRMFEQ-RKSPrLEVVYM-NERGFGLVNREPIAVGDFVIEYVGE 1266
Cdd:cd19473   61 HSSGAKKGCLRGHMLNsrlpiyECH-EGCACSDDCPNRVVERgRKVP-LQIFRTsDGRGWGVRSTVDIKRGQFVDCYVGE 138

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1267 VINHAEFQRRMEQKQRDRDENYYFLGVEK--------------DFIID----AGPkgnlARFMNHSCEPN---------- 1318
Cdd:cd19473  139 IITPEEAQRRRDAATIAQRKDVYLFALDKfsdpdsldprlrgdPYEIDgefmSGP----TRFINHSCDPNlrifarvgdh 214

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24650756 1319 CETQkwtvncIHRVGIFAIKDIPVNSELTFNYL----------WDDLMNNSKKACFCGAKRCSG 1372
Cdd:cd19473  215 ADKH------IHDLAFFAIKDIPRGTELTFDYVdgvtgldddaGDEEKEKEMTKCLCGSPKCRG 272

SET_SETDB1

cd10517

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

1160-1372

1.79e-23

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: 102.37 E-value: 1.79e-23

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1160 PPPYVK-IKTNKAVPPLRFSQNLEDLSTCNC--------------LPVDEHPCGP------EAGCLNRMLFN-------E 1211
Cdd:cd10517   28 SPPYVEySKERIPGKGVNINLDPDFLVGCDCtdgcrdkskcacqqLTIEATAATPggqinpSAGYQYRRLMEklptgvyE 107

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1212 CNPeYCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeqKQRDRDENY--- 1288
Cdd:cd10517  108 CNS-RCKCDKRCYNRVVQNGLQVRLQVFKTEKKGWGIRCLDDIPKGSFVCIYAGQILTEDEANEE---GLQYGDEYFael 183

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1289 -YFLGVEKD------------FIIDAGPKGNLARFMNHSCEPNCETQKWTVNCiH--R---VGIFAIKDIPVNSELTFNY 1350
Cdd:cd10517  184 dYIEVVEKLkegyesdveehcYIIDAKSEGNLGRYLNHSCSPNLFVQNVFVDT-HdlRfpwVAFFASRYIRAGTELTWDY 262

                        250       260
                 ....*....|....*....|...
gi 24650756 1351 LWD-DLMNNSKKACFCGAKRCSG 1372
Cdd:cd10517  263 NYEvGSVPGKVLYCYCGSSNCRG 285

PWWP_NSD3_rpt2

cd20166

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

1049-1143

2.17e-23

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: 95.81 E-value: 2.17e-23

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1049 YGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSqLFRNYT 1128
Cdd:cd20166    2 YKQIVWVKLGNYRWWPAEICNPRSVPLNIQGLKHDIGDFPVFFFGSHDYYWVHQGRVFPYVEGDKSFAEGQTS-INKTFK 80

                         90
                 ....*....|....*
gi 24650756 1129 TGVEEASRFLPIIKA 1143
Cdd:cd20166   81 KALEEAAKRFQELKA 95

SET_KMT2A_2B

cd19170

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

1245-1372

8.14e-23

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: 96.31 E-value: 8.14e-23

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19170   25 GRGLFCKRNIDAGEMVIEYAGEVIRSVLTDKR-EKYYESKGIGCYMFRIDDDEVVDATMHGNAARFINHSCEPNCYSRVV 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCGAKRCSG 1372
Cdd:cd19170  104 NIDGKKHIVIFALRRILRGEELTYDYKFP--IEDVKIPCTCGSKKCRK 149

SET_KMT2C_2D

cd19171

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

1245-1370

2.06e-22

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: 95.19 E-value: 2.06e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVInHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19171   25 GLGLYAARDIEKHTMVIEYIGEII-RNEVANRREKIYESQNRGIYMFRIDNDWVIDATMTGGPARYINHSCNPNCVAEVV 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRC 1370
Cdd:cd19171  104 TFDKEKKIIIISNRRIAKGEELTYDYKFDFEDDQHKIPCLCGAPNC 149

SET_AtSUVH-like

cd10545

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

1211-1350

2.33e-22

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: 97.47 E-value: 2.33e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1211 ECNPeYCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMeqkqrdRDENYYF 1290
Cdd:cd10545   64 ECGP-LCKCPPSCYNRVTQKGLRYRLEVFKTAERGWGVRSWDSIPAGSFICEYVGELLDTSEADTRS------GNDDYLF 136

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1291 ----------------LGVEK--------------DFIIDAGPKGNLARFMNHSCEPNCETQKWTVNC----IHRVGIFA 1336
Cdd:cd10545  137 didnrqtnrgwdggqrLDVGMsdgerssaedeessEFTIDAGSFGNVARFINHSCSPNLFVQCVLYDHndlrLPRVMLFA 216

                        170
                 ....*....|....
gi 24650756 1337 IKDIPVNSELTFNY 1350
Cdd:cd10545  217 ADNIPPLQELTYDY 230

SET_LegAS4-like

cd10522

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

1241-1350

3.21e-22

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: 93.56 E-value: 3.21e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1241 MNERGFGLVNREPIAVGDFVIEYVGEVInhaeFQRRMEQKQRDRDENYYFLGVEKD-FIIDAGPKGNLARFMNHSCEPNC 1319
Cdd:cd10522   10 LSHNGLGLFAAETIAKGEFVGEYTGEVL----DRWEEDRDSVYHYDPLYPFDLNGDiLVIDAGKKGNLTRFINHSDQPNL 85

                         90       100       110
                 ....*....|....*....|....*....|.
gi 24650756 1320 ETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10522   86 ELIVRTLKGEQHIGFVAIRDIKPGEELFISY 116

SET_SETD1A

cd19204

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

1246-1374

8.18e-22

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: 93.55 E-value: 8.18e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1246 FGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKWT 1325
Cdd:cd19204   26 WGLFAMEPIAADEMVIEYVGQNIRQVVADMREKRYVQEGIGSSYLFRVDHDTIIDATKCGNLARFINHCCTPNCYAKVIT 105

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 24650756 1326 VNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCGAKRCSGEI 1374
Cdd:cd19204  106 IESQKKIVIYSKQPIGVNEEITYDYKFP--IEDNKIPCLCGTENCRGTL 152

SET_EZH-like

cd19168

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

1243-1350

1.33e-21

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: 91.87 E-value: 1.33e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1243 ERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeqKQRDRDENYYFLGVEKDFI-IDAGPKGNLARFMNHSCEP---- 1317
Cdd:cd19168   11 ECGLGLFAAEDIKEGEFVIEYTGELISHDEGVRR---EHRRGDVSYLYLFEEQEGIwVDAAIYGNLSRYINHATDKvktg 87

                         90       100       110
                 ....*....|....*....|....*....|...
gi 24650756 1318 NCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd19168   88 NCMPKIMYVNHEWRIKFTAIKDIKIGEELFFNY 120

SET_SUV39H_Clr4-like

cd20073

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

1180-1372

2.12e-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: 95.33 E-value: 2.12e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1180 NLEDLSTCNCL--------PVDEHPcgpEAGCLNRMLFNECNpEYCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNR 1251
Cdd:cd20073   35 DLNNPGSCQCLedsneksfAYDEYG---RVRANTGSIIYECN-ENCDCGINCPNRVVQRGRKLPLEIFKTKHKGWGLRCP 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1252 EPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYF------LGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKWT 1325
Cdd:cd20073  111 RFIKAGTFIGVYLGEVITQSEAEIR-GKKYDNVGVTYLFdldlfeDQVDEYYTVDAQYCGDVTRFINHSCDPNLAIYSVL 189

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756 1326 VN----CIHRVGIFAIKDIPVNSELTFNYLW---DDLMNNS-------------KKACFCGAKRCSG 1372
Cdd:cd20073  190 RDksdsKIYDLAFFAIKDIPALEELTFDYSGrnnFDQLGFIgnrsnskyinlknKRPCYCGSANCRG 256

PWWP_NSD1_rpt2

cd20164

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

1049-1137

5.89e-21

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: 88.78 E-value: 5.89e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1049 YGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLFRNYT 1128
Cdd:cd20164    2 YKEVVWVKVGRYRWWPAEVCHPKSIPTNIQKMKHDIGEFPVLFFGSNDYLWTHQARVFPYMEGDVSSKDKMGKGVDGTYK 81

                         90
                 ....*....|
gi 24650756 1129 TGVEEAS-RF 1137
Cdd:cd20164   82 KALQEAAvRF 91

PWWP_NSD2_rpt2

cd20165

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

1049-1140

6.69e-21

second PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; NSD2, also called histone-lysine N-methyltransferase NSD2, 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, through 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, an high mobility group (HMG) box, five PHD (plant-homeodomain) zinc finger motifs, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD domains mediate chromatin interaction and recognition of histone marks. This model corresponds to the second PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438993 Cd Length: 96 Bit Score: 88.86 E-value: 6.69e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1049 YGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLFRNYT 1128
Cdd:cd20165    2 FQDIIWVKLGNYRWWPAEVCHPKNVPPNIQKMKHEIGEFPVFFFGSKDYYWTHQARVFPYMEGDRGSKYQGGKGIGKVFK 81

                         90
                 ....*....|...
gi 24650756 1129 TGVEEA-SRFLPI 1140
Cdd:cd20165   82 NALQEAeARFREI 94

SET_EZH2

cd19218

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

1245-1350

7.05e-21

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: 89.59 E-value: 7.05e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19218   15 GWGIFIKDPVQKNEFISEYCGEIISQDEADRR--GKVYDKYMCSFLFNLNNDFVVDATRKGNKIRFANHSVNPNCYAKVM 92

                         90       100
                 ....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd19218   93 MVNGDHRIGIFAKRAIQTGEELFFDY 118

SET_SETD1B

cd19205

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

1246-1374

7.34e-21

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: 90.50 E-value: 7.34e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1246 FGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKWT 1325
Cdd:cd19205   26 WGLFAMEPIAADEMVIEYVGQNIRQVIADMREKRYEDEGIGSSYMFRVDHDTIIDATKCGNFARFINHSCNPNCYAKVIT 105

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 24650756 1326 VNCIHRVGIFAIKDIPVNSELTFNYLWDdlMNNSKKACFCGAKRCSGEI 1374
Cdd:cd19205  106 VESQKKIVIYSKQHINVNEEITYDYKFP--IEDVKIPCLCGSENCRGTL 152

SET_SETD8

cd10528

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

1236-1350

8.68e-21

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: 89.94 E-value: 8.68e-21

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1236 LEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDEN---YYFLGVEKDFIIDA-GPKGNLARFM 1311
Cdd:cd10528   19 LKVIEIDGKGRGVIATRPFEKGDFVVEYHGDLITITEAKKREALYAKDPSTGcymYYFQYKGKTYCVDAtKESGRLGRLI 98

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 24650756 1312 NHSC-EPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10528   99 NHSKkKPNLKTKLLVIDGVPHLILVAKRDIKPGEELLYDY 138

SET_EHMT1

cd10535

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

1163-1370

2.29e-19

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: 88.84 E-value: 2.29e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1163 YVKIKTNKAVPPLRFSQNL---------EDLSTCNCLpvdehpCG---------------PEAGCLNRMLFNECNpEYCK 1218
Cdd:cd10535    3 YKYVSQNCVTSPMNIDRNIthlqycvciDDCSSSNCM------CGqlsmrcwydkdgrllPEFNMAEPPLIFECN-HACS 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1219 AGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeqkqrdRDENYYFLGVEKD-- 1296
Cdd:cd10535   76 CWRNCRNRVVQNGLRARLQLYRTRDMGWGVRSLQDIPPGTFVCEYVGELISDSEADVR-------EEDSYLFDLDNKDge 148

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1297 -FIIDAGPKGNLARFMNHSCEPNCETQKwtVNCIH------RVGIFAIKDIPVNSELTFNY---LWDdlMNNSKKACFCG 1366
Cdd:cd10535  149 vYCIDARFYGNVSRFINHHCEPNLVPVR--VFMAHqdlrfpRIAFFSTRLIEAGEQLGFDYgerFWD--IKGKLFSCRCG 224


                 ....
gi 24650756 1367 AKRC 1370
Cdd:cd10535  225 SPKC 228

SET_KMT2A

cd19206

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

1245-1370

3.28e-19

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: 85.84 E-value: 3.28e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19206   25 GRGLFCKRNIDAGEMVIEYSGNVIRSILTDKR-EKYYDSKGIGCYMFRIDDSEVVDATMHGNAARFINHSCEPNCYSRVI 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRC 1370
Cdd:cd19206  104 NIDGQKHIVIFAMRKIYRGEELTYDYKFPIEDASNKLPCNCGAKKC 149

SET_SUV39H2

cd10532

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

1166-1372

5.14e-19

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: 88.02 E-value: 5.14e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1166 IKTNKAVPPLRFSQnlEDLSTCNCLPVDEHPCGP-EAGCLnrMLFN--------------ECNpEYCKAGSLCENRMFEq 1230
Cdd:cd10532    6 INEYKPAPGINLDN--EATVGCDCSDCFFGKCCPaEAGVL--FAYNehgqlkippgtpiyECN-SRCKCGPDCPNRVVQ- 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1231 rKSPRLEVVYM---NERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYF-LGVEKD-FIIDAGPKG 1305
Cdd:cd10532   80 -KGTQYSLCIFrtsNGRGWGVKTLQKIKKNSFVMEYVGEVITSEEAERR-GQFYDSKGITYLFdLDYESDeFTVDAARYG 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1306 NLARFMNHSCEPNCETQKWTVNC----IHRVGIFAIKDIPVNSELTFNY-------LWDDLMNNS------KKACFCGAK 1368
Cdd:cd10532  158 NVSHFVNHSCDPNLQVFNVFIDNldtrLPRIALFSTRTIKAGEELTFDYqmkgsgdLSSDSIDNSpakkrvRTVCKCGAV 237


                 ....
gi 24650756 1369 RCSG 1372
Cdd:cd10532  238 TCRG 241

PWWP

cd05162

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

1050-1134

2.82e-18

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: 81.00 E-value: 2.82e-18

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKaHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQlFRNYTT 1129
Cdd:cd05162    1 GDLVWAKLKGYPWWPARVVDPEELPEEVGKK-KKKGGVLVQFFGDNDYAWVKSKNIKPFEEGFKKEFKKKKKK-SKKFKK 78


                 ....*
gi 24650756 1130 GVEEA 1134
Cdd:cd05162   79 AVEEA 83

SET_EHMT2

cd10533

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

1208-1370

4.52e-18

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: 85.07 E-value: 4.52e-18

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1208 LFNECNpEYCKAGSLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeqkqrdRDEN 1287
Cdd:cd10533   66 LIFECN-QACSCWRNCKNRVVQSGIKVRLQLYRTAKMGWGVRALQTIPQGTFICEYVGELISDAEADVR-------EDDS 137

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1288 YYFLGVEKD---FIIDAGPKGNLARFMNHSCEPNCETQKwtVNCIH------RVGIFAIKDIPVNSELTFNY---LWDdl 1355
Cdd:cd10533  138 YLFDLDNKDgevYCIDARYYGNISRFINHLCDPNIIPVR--VFMLHqdlrfpRIAFFSSRDIRTGEELGFDYgdrFWD-- 213

                        170
                 ....*....|....*
gi 24650756 1356 MNNSKKACFCGAKRC 1370
Cdd:cd10533  214 IKSKYFTCQCGSEKC 228

SET_EZH1

cd19217

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

1245-1350

4.57e-18

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: 82.04 E-value: 4.57e-18

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19217   17 GWGTFIKESVQKNEFISEYCGELISQDEADRR--GKVYDKYMSSFLFNLNNDFVVDATRKGNKIRFANHSVNPNCYAKVV 94

                         90       100
                 ....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd19217   95 MVNGDHRIGIFAKRAIQQGEELFFDY 120

SET_SETDB

cd10541

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

1211-1374

4.35e-17

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: 82.21 E-value: 4.35e-17

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1211 ECNPeYCKAG-SLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINhaefqRRMEQKQRDRDENYY 1289
Cdd:cd10541   69 ECNK-LCKCDpNMCQNRLVQHGLQVRLQLFKTQNKGWGIRCLDDIAKGTFVCIYAGKILT-----DDFADKEGLEMGDEY 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1290 FLGVEKD----FIIDAGPKGNLARFMNHSCEPNCETQKWTVNCIHR----VGIFAIKDIPVNSELTFNYLWDDLMNNSKK 1361
Cdd:cd10541  143 FANLDHIeescYIIDAKLEGNLGRYLNHSCSPNLFVQNVFVDTHDLrfpwVAFFASKRIKAGTELTWDYNYEVGSVEGKE 222

                        170
                 ....*....|....
gi 24650756 1362 A-CFCGAKRCSGEI 1374
Cdd:cd10541  223 LlCCCGSNECRGRL 236

PHD4_NSD

cd15567

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

1001-1041

7.36e-17

Pssm-ID: 277042 [Multi-domain] Cd Length: 41 Bit Score: 75.36 E-value: 7.36e-17

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKTNESYICEEC 1041
Cdd:cd15567    1 WCFICSEGGSLICCESCPASFHPECLGLEPPPEGKFYCEDC 41

PWWP_NSD2_rpt1

cd20162

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

393-524

1.59e-16

first PWWP domain found in nuclear SET domain-containing protein 2 (NSD2) and similar proteins; NSD2, also called histone-lysine N-methyltransferase NSD2, 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, through 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 finger motifs, and an NSD-specific Cys-His rich domain (C5HCH). The SET domain is responsible for histone methyltransferase activity. The PWWP, HMG, and PHD domains mediate chromatin interaction and recognition of histone marks. This model corresponds to the first PWWP domain. The PWWP domain specifically recognizes DNA and histone methylated lysines.

Pssm-ID: 438990 Cd Length: 128 Bit Score: 77.26 E-value: 1.59e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  393 YQVGDLFWGKVFSYCFWPCMVCPDPLgqivgnMPSHPQRSSLdNANVPiQVHVRFFADNGRRNWIKPENLLTFAGLKAFD 472
Cdd:cd20162    1 YNVGDLVWSKVSGYPWWPCMVSADPL------LHSHTKLKGQ-KKSAR-QYHVQFFGDAPERAWIFEKSLVPFEGEGQFE 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 24650756  473 DMREElRIKHGPKSA---KYRQMVPKRTKVViWRQAIEEAQAMTQIPYSDRLEKF 524
Cdd:cd20162   73 QLCQE-SAKQAPTKAekiKLLKPISGKLRAQ-WDMGIVQAEEAASMTVEERKAKF 125

PWWP

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

1049-1105

3.22e-16

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

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 74.30 E-value: 3.22e-16

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756    1049 YGEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVRFFGTHDHGWISRRRV 1105
Cdd:smart00293    3 PGDLVWAKMKGFPWWPALVISPKMTPDNIMKRKSDENLYPVLFFGDKDTAWIPSSKL 59

SET_SETDB2

cd10523

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

1211-1374

6.87e-16

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: 79.49 E-value: 6.87e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1211 ECNPeYCKAG-SLCENRMFEQRKSPRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVINHAEFQ------RRMEQKQRD 1283
Cdd:cd10523   85 ECNV-SCKCNrMLCQNRVVQHGLQVRLQVFKTEKKGWGVRCLDDIDKGTFVCIYAGRVLSRARSPteplppKLELPSENE 163

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1284 RDENYYFLGVEKD-------FIIDAGPKGNLARFMNHSCEPNCETQKWTVN----CIHRVGIFAIKDIPVNSELTFNYLW 1352
Cdd:cd10523  164 VEVVTSWLILSKKrklrenvCFLDASKEGNVGRFLNHSCCPNLFVQNVFVDthdkNFPWVAFFTNRVVKAGTELTWDYSY 243

                        170       180
                 ....*....|....*....|...
gi 24650756 1353 D-DLMNNSKKACFCGAKRCSGEI 1374
Cdd:cd10523  244 DaGTSPEQEIPCLCGVNKCQKKI 266

SET_KMT2C

cd19208

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

1244-1370

9.00e-16

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: 76.20 E-value: 9.00e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1244 RGFGLVNREPIAVGDFVIEYVGEVInHAEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQK 1323
Cdd:cd19208   25 QGLGLYAARDIEKHTMVIEYIGTII-RNEVANRKEKLYESQNRGVYMFRIDNDHVIDATLTGGPARYINHSCAPNCVAEV 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 24650756 1324 WTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRC 1370
Cdd:cd19208  104 VTFEKGHKIIISSSRRIQKGEELCYDYKFDFEDDQHKIPCHCGAVNC 150

SET

cd08161

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

1307-1350

9.70e-16

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: 73.05 E-value: 9.70e-16

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 24650756 1307 LARFMNHSCEPNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd08161   28 LARFINHSCEPNCEFEEVYVGGKPRVFIVALRDIKAGEELTVDY 71

SET_KMT2B

cd19207

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

1245-1370

2.84e-15

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: 74.67 E-value: 2.84e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQKW 1324
Cdd:cd19207   25 GRGLFCKRNIDAGEMVIEYSGIVIRSVLTDKR-EKFYDSKGIGCYMFRIDDFDVVDATMHGNAARFINHSCEPNCYSRVI 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 24650756 1325 TVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRC 1370
Cdd:cd19207  104 HVEGQKHIVIFALRKIYRGEELTYDYKFPIEDASNKLPCNCGAKRC 149

SET_SUV39H1

cd10525

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

1211-1350

4.10e-15

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: 76.86 E-value: 4.10e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1211 ECNPEyCKAGSLCENRMFEQRKSPRLEVVYM-NERGFGLVNREPIAVGDFVIEYVGEVINHAEFQRRmeQKQRDRDENYY 1289
Cdd:cd10525   64 ECNSR-CRCGPDCPNRVVQKGIQYDLCIFRTdNGRGWGVRTLEKIRKNSFVMEYVGEIITSEEAERR--GQIYDRQGATY 140

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756 1290 FLG---VEKDFIIDAGPKGNLARFMNHSCEPNCETQKWTVNCIH----RVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10525  141 LFDldyVEDVYTVDAAYYGNISHFVNHSCDPNLQVYNVFIDNLDerlpRIALFATRTIRAGEELTFDY 208

PWWP

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

396-511

4.64e-15

Pssm-ID: 459964 [Multi-domain] Cd Length: 92 Bit Score: 72.07 E-value: 4.64e-15

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756    396 GDLFWGKVFSYCFWPCMVCPdplgqivgnmPSHPQRSSLDNANVPIQVHVRFFADNgRRNWIKPENLLTFAGLKAFDdmr 475
Cdd:pfam00855    1 GDLVWAKLKGYPWWPARVVD----------PEELPENVLKPKKKDGEYLVRFFGDS-EFAWVKPKDLKPFDEGDEFE--- 66

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 24650756    476 eelrikhgpksakYRQMVPKRTKVVIWRQAIEEAQA 511
Cdd:pfam00855   67 -------------YLKKKKKKKKKKAFKKALEEAEE 89

SET_KMT2D

cd19209

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

1244-1370

5.66e-15

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: 73.96 E-value: 5.66e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1244 RGFGLVNREPIAVGDFVIEYVGEVINHaEFQRRMEQKQRDRDENYYFLGVEKDFIIDAGPKGNLARFMNHSCEPNCETQK 1323
Cdd:cd19209   26 QGLGLYAAKDLEKHTMVIEYIGTIIRN-EVANRREKIYEEQNRGIYMFRINNEHVIDATLTGGPARYINHSCAPNCVAEV 104

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 24650756 1324 WTVNCIHRVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFCGAKRC 1370
Cdd:cd19209  105 VTFDKEDKIIIISSRRIPKGEELTYDYQFDFEDDQHKIPCHCGAWNC 151

PHD3_NSD

cd15566

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

933-988

1.20e-14

Pssm-ID: 277041 Cd Length: 48 Bit Score: 69.38 E-value: 1.20e-14

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 24650756  933 VCHTCVSDDPSGkfqqlgSSKLAKCVRCPATYHQlsKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15566    1 TCATCEASGDGS------SGKLVRCIRCPRAYHA--GCIPAGSKLLNKKLIICPKH 48

SET_SpSET3-like

cd19183

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

1242-1354

1.98e-14

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: 72.82 E-value: 1.98e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1242 NERGFGLVNREPIAVGDFVIEYVGEVinhaEFQrrmEQKQRDRDENYYFLGVEKDFI---------IDAGPKGNLARFMN 1312
Cdd:cd19183   10 NASRFGLFADRPIPAGDPIQELLGEI----GLQ---SEYIADPENQYQILGAPKPHVffhpqsplyIDTRRSGSVARFIR 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 24650756 1313 HSCEPNCE--TQKWTVNCIHRVGIFAIKDIPVNSELTFNYLWDD 1354
Cdd:cd19183   83 RSCRPNAElvTVASDSGSVLKFVLYASRDISPGEEITIGWDWDN 126

SET_SETD5-like

cd10529

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

1246-1353

2.36e-14

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: 71.15 E-value: 2.36e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1246 FGLVNREPIAVGDFVIEYVGEVINHAEFQRRmEQKQRDRDENYYFLG--VEKDFIIDAGPKGNLARFMNHSCEPNCETQK 1323
Cdd:cd10529   17 KGLVATEDISPGEPILEYKGEVSLRSEFKED-NGFFKRPSPFVFFYDgfEGLPLCVDARKYGNEARFIRRSCRPNAELRH 95

                         90       100       110
                 ....*....|....*....|....*....|..
gi 24650756 1324 WTV--NCIHrVGIFAIKDIPVNSELTFNYLWD 1353
Cdd:cd10529   96 VVVsnGELR-LFIFALKDIRKGTEITIPFDYD 126

AWS

smart00570

associated with SET domains; subdomain of PRESET

1183-1233

5.06e-14

associated with SET domains; subdomain of PRESET

Pssm-ID: 197795 Cd Length: 50 Bit Score: 67.42 E-value: 5.06e-14

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|...
gi 24650756    1183 DLSTCNCLP--VDEHPCGpeAGCLNRMLFNECnPEYCKAGSLCENRMFEQRKS 1233
Cdd:smart00570    1 DIMTCECKPtdDDETACG--SDCLNRMLFIEC-SSSCPCGSYCSNQRFQKRQY 50

PWWP_NSD3_rpt1

cd20163

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

393-528

2.22e-13

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: 68.42 E-value: 2.22e-13

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  393 YQVGDLFWGKVFSYCFWPCMVCPDPLGQIVGNMPSHPQRssldnanvpiQVHVRFFADNGRRNWIKPENLLTFAGLKAFD 472
Cdd:cd20163    1 FQVGDLVWSKVGTYPWWPCMVSSDPQLEVHTKINTRGAR----------EYHVQFFSSQPERAWVHEKRVREYKGHKQYE 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756  473 DMREELRIKHGPKSAKYRQMVPKRTKV-VIWRQAIEEAQAMTQIPYSDRLEKFYQTY 528
Cdd:cd20163   71 ELLAEATKQASNHSEKQKIRKPRPQRErAQWDIGIAHAEKALKMTREERIEQYTFIY 127

PWWP_GLYR1

cd05836

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

1050-1134

1.23e-11

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: 61.85 E-value: 1.23e-11

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPtevPSNILKKAHGENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLFRNYTT 1129
Cdd:cd05836    4 GDLVWAKMKGFPPWPGKIVNP---PPDLKKPPRKKKMHCVYFFGSENYAWIEDENIKPYEEFKEEMLKSKKSAGFKDAVE 80


                 ....*
gi 24650756 1130 GVEEA 1134
Cdd:cd05836   81 AIEEY 85

PWWP_AtATX3-like

cd20143

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

1050-1135

1.44e-11

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: 62.39 E-value: 1.44e-11

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGENDFVVrFFG---THDHGWISRRRVYLYIEGDTG--DGHKTKSQLF 1124
Cdd:cd20143    3 GDLVWAKVGTHPFWPARVVEPAEQAEEVRRRCVPGSLCVY-FFGpggSRDYGWVRRSMIFPFTDDLARfqTQKIKNKKRP 81

                         90
                 ....*....|.
gi 24650756 1125 RNYTTGVEEAS 1135
Cdd:cd20143   82 QEFQEALEEAK 92

PWWP

cd05162

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

396-511

1.49e-11

Pssm-ID: 438958 [Multi-domain] Cd Length: 86 Bit Score: 61.74 E-value: 1.49e-11

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  396 GDLFWGKVFSYCFWPCMVCPDPlgqivgnmpshPQRSSLDNANVPIQVHVRFFADNgRRNWIKPENlltfagLKAFDDMR 475
Cdd:cd05162    1 GDLVWAKLKGYPWWPARVVDPE-----------ELPEEVGKKKKKGGVLVQFFGDN-DYAWVKSKN------IKPFEEGF 62

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 24650756  476 EELRIKHGPKSAKYrqmvpkrtkvviwRQAIEEAQA 511
Cdd:cd05162   63 KKEFKKKKKKSKKF-------------KKAVEEAEE 85

PHD2_NSD

cd15565

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

867-932

4.61e-11

Pssm-ID: 277040 Cd Length: 51 Bit Score: 59.36 E-value: 4.61e-11

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24650756  867 CVICHQVESpavpstprkedssshtpIEDKLLTCSQPMCGKRFHTSCCKYWPQASSSKHSA-RCPRH 932
Cdd:cd15565    2 CFVCKKLGS-----------------VGGEVFKCSVASCGKFYHEECLKKWPLTTISDSKKfRCPLH 51

PWWP_MSH6

cd05837

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

393-523

1.10e-10

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: 59.99 E-value: 1.10e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  393 YQVGDLFWGKVFSYCFWPCMVCPDPLGQIVGnmpsHPQRSSldnanvpiQVHVRFFADNGRRNWIKPENLLTFAGLKAFD 472
Cdd:cd05837    1 FSPGDLVWAKLEGYPWWPSLVCNHPTTGFHK----KFGKKG--------EVHVQFFDDPPSRAWVKAKNVKPFTGSDDKE 68

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 24650756  473 DMREELrikhgPKSAKyrqmvPKrtkvviWRQAIEEAQAMTQIPYSDRLEK 523
Cdd:cd05837   69 FQKGGM-----FFSKD-----PK------WKKAVKEADKALKLSVEERLKL 103

PWWP_ZCWPW2

cd20146

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

1046-1139

1.36e-10

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: 60.00 E-value: 1.36e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1046 LPLyGEIVWAKFNNFRWWPAIILP-PTEVPSNILKKahgENDFV---VRFFGT-HDHGWISRRRVYLYIEGDTGDGHKTK 1120
Cdd:cd20146    9 LPL-GSLVWAKMTGYPRWPAILTPdPICGEYVDYDE---DGEVEkyhVEFLGKpHSHAWISAKSVEPYNSNTKTPKCKTK 84

                         90       100
                 ....*....|....*....|.
gi 24650756 1121 SQLFR--NYTTGVEEASRFLP 1139
Cdd:cd20146   85 KSKKRkkSYESALEEAERLLK 105

PWWP_ZCWPW1

cd20145

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

393-524

1.28e-09

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: 57.17 E-value: 1.28e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  393 YQVGDLFWGKVFSYCFWPCMV--CPDplgqivgnmpshpqRSS----LDNANVPIQVHVRFFADNGRRNWIKPENlltfa 466
Cdd:cd20145    6 YTPGSLVWAKMPGYPWWPAMVedDPD--------------TEEffwlDEESDIPTKYHVTFFDKPVSRAWVRASS----- 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756  467 gLKAFDDMREELRIKHgPKSAKYRQMVpkrtkvviwRQAIEEAQAMTQIPYSDRLEKF 524
Cdd:cd20145   67 -IKPFTDNSNEPNLTK-KKGKKYKKRL---------NEAVEMAREALKLSIKERLKKF 113

AWS

pfam17907

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

1193-1231

2.27e-09

Pssm-ID: 465559 Cd Length: 39 Bit Score: 53.97 E-value: 2.27e-09

                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 24650756   1193 DEHPCGPEAGCLNRMLFNECNPEYCKAGSLCENRMFEQR 1231
Cdd:pfam17907    1 DDPPCGCGSDCINRMLFVECTPKTCPCGESCQNQRFQRK 39

PWWP_NSD1_rpt1

cd20161

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

393-512

2.94e-09

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: 56.33 E-value: 2.94e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  393 YQVGDLFWGKVFSYCFWPCMVCPDPLGQIVGNMPSHPQRSsldnanvPIQVHVRFFADNGRRNWIKPENLLTFAGLKAFD 472
Cdd:cd20161    4 YEVGDLVWAKFSRRPWWPCRICADPLLDTHSKMKVPSRRP-------CRQYYVETLGELTEKAWVAAKAVVPFEGRHQFE 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 24650756  473 DMrEELRIKHGPKSAKYRQMVPKRTkVVIWRQAIEEAQAM 512
Cdd:cd20161   77 EL-PVLRRRGKQKEKDYKHKIPQKL-LSLWEASVAHAEDF 114

PWWP_ZCWPW2

cd20146

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

391-522

9.98e-09

Pssm-ID: 438974 Cd Length: 113 Bit Score: 54.61 E-value: 9.98e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  391 PTYQVGDLFWGKVFSYCFWPCMVCPDPL-GQIVgnmpshpqrsSLDNANVPIQVHVRFFADNGRRNWIKPENLLTFAGlK 469
Cdd:cd20146    7 SQLPLGSLVWAKMTGYPRWPAILTPDPIcGEYV----------DYDEDGEVEKYHVEFLGKPHSHAWISAKSVEPYNS-N 75

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 24650756  470 AFDDMREELRIKHGPKSAKYrqmvpkrtkvviwrqAIEEAQAMTQIPYSDRLE 522
Cdd:cd20146   76 TKTPKCKTKKSKKRKKSYES---------------ALEEAERLLKLTCEERLE 113

PHD4_NSD3

cd15658

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

1001-1041

1.07e-08

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: 52.23 E-value: 1.07e-08

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKTNeSYICEEC 1041
Cdd:cd15658    1 FCFVCARGGRLLCCESCPASFHPECLSIEMPEG-CWNCNEC 40

PHD3_NSD1

cd15653

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

933-988

1.20e-08

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: 52.62 E-value: 1.20e-08

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756  933 VCHTCVSDDPSgkfqQLGSSK--LAKCVRCPATYHQLSKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15653    1 ICLTCHATNPS----NPSASKgrLMRCVRCPVAYHANDFCLAAGSVILASNSIICPNH 54

PWWP_AtATX1-like

cd20142

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

1050-1138

1.43e-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: 53.51 E-value: 1.43e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILppTE-------VPSNILKKAHGendFVVRFFGTHDHGWISRRRVYLYIEG-DTGDGHKTKS 1121
Cdd:cd20142    3 GDVVWAKVKGYPMWPALVI--DEehaercgLEANRPGKKGT---VPVQFFGTYEVARLNPKKVVGFSKGlDLKYHSKCKA 77

                         90
                 ....*....|....*..
gi 24650756 1122 QLFRNyttGVEEASRFL 1138
Cdd:cd20142   78 PVFRQ---ALEEAERYL 91

SET_SMYD

cd20071

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

1307-1370

1.75e-08

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: 54.31 E-value: 1.75e-08

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24650756 1307 LARFMNHSCEPNCEtqkWTVNCIHRVGIFAIKDIPVNSELTFNYLWDD---------LMNNSKKACFCgaKRC 1370
Cdd:cd20071   55 LASLLNHSCDPNAV---VVFDGNGTLRVRALRDIKAGEELTISYIDPLlprterrreLLEKYGFTCSC--PRC 122

PWWP_BRPF

cd05839

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

1050-1107

2.48e-08

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: 53.04 E-value: 2.48e-08

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPT------EVPSNILKKAH----GENDFVVRFFGT-HDHGWISRRRVYL 1107
Cdd:cd05839    4 GDLVWAKCRGYPWYPAEIVDPKdpkegnGVPIPVPPDRVlkksNEKLYLVLFFDAkRTWGWLPRNKLRP 72

PWWP_BS69-like

cd05841

PWWP domain found in protein BS69, protein kinase C-binding protein 1 (PRKCBP1) and similar ...

1051-1142

2.89e-08

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: 52.40 E-value: 2.89e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1051 EIVWAKFNNFRWWPAIILpptevpsnilkkAHGENDFVVRFFGTHDHGWISRRRVYLY-IEGDTGDGHKTKSQLFRNYTT 1129
Cdd:cd05841    8 PLVWVKLDGFPFWPAKVM------------GTKDGQVDVRFFGDYDRAWLPSKNVTLHtREIVSTLPDSSESKDKRTLKK 75

                         90
                 ....*....|...
gi 24650756 1130 GVEEASRFLPIIK 1142
Cdd:cd05841   76 AIKELERHIALLR 88

PHD4_NSD2

cd15657

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

1001-1041

3.13e-08

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: 50.77 E-value: 3.13e-08

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKtNESYICEEC 1041
Cdd:cd15657    1 WCFVCSKGGSLLCCESCPAAFHPDCLNIEMP-DGSWFCNDC 40

PWWP_ScIOC4-like

cd05840

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

1050-1105

6.08e-08

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: 51.53 E-value: 6.08e-08

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKAHGEND-----FVVRFFGTHDHGWISRRRV 1105
Cdd:cd05840    1 GDLVLAKVKGYPPWPAMVLPEELLPKNVLKAKKRKPKskktvYPVQFFPDNEYYWVSPSSL 61

PWWP_PRKCBP1

cd20160

PWWP domain found in protein kinase C-binding protein 1 (PRKCBP1) and similar proteins; ...

1052-1144

6.54e-08

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: 51.41 E-value: 6.54e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1052 IVWAKFNNFRWWPAiilpptevpsnilkKAHGEND-FV-VRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSqlfrNYTT 1129
Cdd:cd20160    9 LVWAKLKGFPFWPA--------------KALRVNNgQVdVRFFGAHDRAWVPVKDCYLYSKEPPTSVKKKKS----GLDE 70

                         90
                 ....*....|....*
gi 24650756 1130 GVEEASRFLPIIKAR 1144
Cdd:cd20160   71 AMEELEIHIEKLREK 85

PWWP

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

393-462

9.40e-08

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

Pssm-ID: 214603 [Multi-domain] Cd Length: 63 Bit Score: 50.04 E-value: 9.40e-08

                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756     393 YQVGDLFWGKVFSYCFWPCMVCPDPLgqivgnMPSHPQRSSLDNanvpIQVHVRFFaDNGRRNWIKPENL 462
Cdd:smart00293    1 FKPGDLVWAKMKGFPWWPALVISPKM------TPDNIMKRKSDE----NLYPVLFF-GDKDTAWIPSSKL 59

PHD2_CHD_II

cd15532

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

1002-1041

1.25e-07

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: 49.20 E-value: 1.25e-07

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKT--NESYICEEC 1041
Cdd:cd15532    2 CRVCKDGGELLCCDGCPSSYHLHCLNPPLAEipDGDWFCPRC 43

PHD4_NSD1

cd15656

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

1001-1041

1.52e-07

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: 48.86 E-value: 1.52e-07

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCRNIPIKTNeSYICEEC 1041
Cdd:cd15656    1 WCFVCSEGGSLLCCESCPAAFHRECLNIDMPEG-SWYCNDC 40

PWWP_HRP

cd05834

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

1050-1133

2.48e-07

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: 49.47 E-value: 2.48e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPTEVPSNILKKahgendFVVRFFGTHDHGWISRRRVYLYiegdTGDGHKT-KSQLFRNYT 1128
Cdd:cd05834    4 GDLVFAKVKGYPPWPARIDEIPEGAKIPKNK------YPVFFYGTHETAFLKPKDLFPY----EENKEKYgKPRKRKGFN 73


                 ....*
gi 24650756 1129 TGVEE 1133
Cdd:cd05834   74 EGLWE 78

PWWP_AtATX3-like

cd20143

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

394-509

2.73e-07

Pssm-ID: 438971 [Multi-domain] Cd Length: 100 Bit Score: 50.06 E-value: 2.73e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756  394 QVGDLFWGKVFSYCFWPCMVCpDPlgqivGNMPSHPQRSSldnanVPIQVHVRFFADNGRRN--WIKPENLLTFaglkaf 471
Cdd:cd20143    1 VEGDLVWAKVGTHPFWPARVV-EP-----AEQAEEVRRRC-----VPGSLCVYFFGPGGSRDygWVRRSMIFPF------ 63

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 24650756  472 ddMREELRIKHGPKSAKYRQmvpkrtkvVIWRQAIEEA 509
Cdd:cd20143   64 --TDDLARFQTQKIKNKKRP--------QEFQEALEEA 91

PHD_TIF1_like

cd15541

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

1001-1041

4.90e-07

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: 47.34 E-value: 4.90e-07

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCR--NIPIKTNESYICEEC 1041
Cdd:cd15541    1 WCAVCQNGGELLCCDKCPRVFHLDCHipPIPEFPSGEWSCSLC 43

PWWP_MSH6

cd05837

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

1050-1134

5.64e-07

Pssm-ID: 438962 Cd Length: 103 Bit Score: 49.21 E-value: 5.64e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIILPPtevPSNILKKAHGENDFV-VRFFG-THDHGWISRRRVYLYIEGDTGDGHKtKSQLFRNY 1127
Cdd:cd05837    4 GDLVWAKLEGYPWWPSLVCNH---PTTGFHKKFGKKGEVhVQFFDdPPSRAWVKAKNVKPFTGSDDKEFQK-GGMFFSKD 79

                         90
                 ....*....|
gi 24650756 1128 TT---GVEEA 1134
Cdd:cd05837   80 PKwkkAVKEA 89

SET_SETD5

cd19181

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

1254-1370

6.08e-07

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: 50.39 E-value: 6.08e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1254 IAVGDFVIEYVGEVINHAEFQRRMEQKQRDRDENYY---FLGVEkdFIIDAGPKGNLARFMNHSCEPNCETQKWTVNCIH 1330
Cdd:cd19181   27 LALDTLIIEYRGKVMLRQQFEVNGHFFKRPYPFVLFyskFNGVE--MCVDARTFGNDARFIRRSCTPNAEVRHMIADGMI 104

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1331 RVGIFAIKDIPVNSELTFNYLWDDLMNNSKKACFC--GAKRC 1370
Cdd:cd19181  105 HLCIYAVAAIAKDAEVTIAFDYEYSNCNYKVDCAChkGNRNC 146

PHD3_NSD2

cd15654

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

934-988

9.91e-07

PHD finger 3 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 third PHD finger.

Pssm-ID: 277124 Cd Length: 54 Bit Score: 47.15 E-value: 9.91e-07

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 24650756  934 CHTCVSDDPSGKFQQLGssKLAKCVRCPATYHQLSKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15654    2 CVSCHASNPSNPRATKG--KMMRCVRCPVAYHGGDLCIAAGCAVLTSNSIICTNH 54

PHD1_PHF12

cd15533

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

1002-1041

2.17e-06

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: 45.81 E-value: 2.17e-06

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKTNE----SYICEEC 1041
Cdd:cd15533    2 CDSCGEGGDLLCCDRCPASFHLQCCNPPLDEEDlppgEWLCHRC 45

PHD1_AIRE

cd15539

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

1002-1041

2.90e-06

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: 45.52 E-value: 2.90e-06

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKT--NESYICEEC 1041
Cdd:cd15539    2 CAVCGDGGELLCCDGCPRAFHLACLVPPLTLipSGTWRCSSC 43

PWWP_DNMT3

cd05835

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

1049-1097

4.44e-06

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: 46.10 E-value: 4.44e-06

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 24650756 1049 YGEIVWAKFNNFRWWPAIILPPTEVPsnilKKAHGENDFVVRFFGthDH 1097
Cdd:cd05835    2 IGDLVWAKLKGSPWWPGIVVSHKDCG----QKPPAEGSVWVFWFG--DH 44

SET_Suv4-20-like

cd10524

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

1302-1350

8.37e-06

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: 46.89 E-value: 8.37e-06

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 24650756 1302 GPkgnlARFMNHSCEPNCetqKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10524   75 GP----AAFINHDCRPNC---KFVPTGKSTACVKVLRDIEPGEEITVYY 116

PHD_PRKCBP1

cd15538

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

1002-1041

9.16e-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: 43.85 E-value: 9.16e-06

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKTNESYICEEC 1041
Cdd:cd15538    2 CWRCHKEGQVLCCSLCPRVYHKKCLKLTSEPDEDWVCPEC 41

PHD

pfam00628

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

1001-1041

9.34e-06

Pssm-ID: 425785 [Multi-domain] Cd Length: 51 Bit Score: 44.02 E-value: 9.34e-06

                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 24650756   1001 WCYIC---VKGGELVCCETCPIAVHAHCRNIPIKTNE----SYICEEC 1041
Cdd:pfam00628    1 YCAVCgksDDGGELVQCDGCDDWFHLACLGPPLDPAEipsgEWLCPEC 48

SET_ATXR5_6-like

cd10539

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

1234-1350

9.34e-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: 46.63 E-value: 9.34e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1234 PRLEVVYMNERGFGLVNREPIAVGDFVIEYVGEVinhaefqRRMeqKQRDRDENYYFLGV------EKDFIIDAGPKGNL 1307
Cdd:cd10539    4 PPLLVVFDPREGFTVEADGFIKDLTIIAEYTGDV-------DYI--RNREFDDNDSIMTLllagdpSKSLVICPDKRGNI 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 24650756 1308 ARFM----NHSCE----PNCETQKWTVNCIHRVGIFAIKDIPVNSELTFNY 1350
Cdd:cd10539   75 ARFIsginNHTKDgkkkQNCKCVRYSINGEARVLLVATRDIAKGERLYYDY 125

PHD

smart00249

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

1001-1041

1.05e-05

Pssm-ID: 214584 [Multi-domain] Cd Length: 47 Bit Score: 43.74 E-value: 1.05e-05

                            10        20        30        40
                    ....*....|....*....|....*....|....*....|....*..
gi 24650756    1001 WCYIC---VKGGELVCCETCPIAVHAHCRNIPIKT---NESYICEEC 1041
Cdd:smart00249    1 YCSVCgkpDDGGELLQCDGCDRWYHQTCLGPPLLEeepDGKWYCPKC 47

SET_SpSet7-like

cd10540

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

1235-1353

2.77e-05

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: 44.55 E-value: 2.77e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1235 RLEVVYMNERGFGLVNREPIAVGDfVIEYVGEVINHAEFQRRMEQKQRDrdeNYYFLGVEKDFIIDAGpKGNLArfmNHS 1314
Cdd:cd10540    1 RLEVKPSTLKGRGVFATRPIKKGE-VIEEAPVIVLPKEEYQHLCKTVLD---HYVFSWGDGCLALALG-YGSMF---NHS 72

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1315 CEPNCETQKWTVNciHRVGIFAIKDIPVNSELTFNY---LWD 1353
Cdd:cd10540   73 YTPNAEYEIDFEN--QTIVFYALRDIEAGEELTINYgddLWD 112

PHD1_Rco1

cd15535

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

1002-1041

2.95e-05

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: 42.41 E-value: 2.95e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPI----KTNESYICEEC 1041
Cdd:cd15535    2 CSACGGYGSFLCCDGCPRSFHFSCLDPPLeednLPDDEWFCNEC 45

PHD_TIF1alpha

cd15622

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

1001-1041

3.49e-05

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: 42.36 E-value: 3.49e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHCrNIPIKTN---ESYICEEC 1041
Cdd:cd15622    1 WCAVCQNGGELLCCEKCPKVFHLSC-HVPTLMNfpsGEWICTFC 43

PHD1_BPTF

cd15559

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

1002-1041

3.60e-05

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: 42.40 E-value: 3.60e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKT--NESYICEEC 1041
Cdd:cd15559    2 CRVCHKLGDLLCCETCSAVYHLECVDPPLEEvpEEDWQCEVC 43

PHD5_NSD

cd15568

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

1001-1038

5.04e-05

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: 41.93 E-value: 5.04e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 24650756 1001 WCYICVKGGELVCC--ETCPIAVHAHCRNIPIKTNESYIC 1038
Cdd:cd15568    1 ECFRCGDGGDLVLCdfKGCPKVYHLSCLGLEKPPGGKWIC 40

PHD_SF

cd15489

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

1002-1041

5.19e-05

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.

Pssm-ID: 276966 [Multi-domain] Cd Length: 48 Bit Score: 41.92 E-value: 5.19e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 24650756 1002 CYIC----VKGGELVCCETCPIAVHAHCRNIPIKT---NESYICEEC 1041
Cdd:cd15489    2 CIVCgkggDLGGELLQCDGCGKWFHADCLGPPLSSfvpNGKWICPVC 48

BRcat_RBR_RNF14

cd20341

BRcat domain found in RING finger protein 14 (RNF14); RNF14, also called androgen receptor (AR) ...

929-970

6.65e-05

BRcat domain found in RING finger protein 14 (RNF14); RNF14, also called androgen receptor (AR)-associated protein 54 (ARA54), HFB30, or Triad2 protein, is an RBR-type E3 ubiquitin-protein ligase that is highly expressed in the testis and interacts with class III E2s (UBE2E2, UbcH6, and UBE2E3). Its differential localization may play an important role in testicular development and spermatogenesis in humans. RNF14 functions as a transcriptional regulator of mitochondrial and immune function in muscles. It is a ligand-dependent AR co-activator that enhances AR-dependent transcriptional activation. It may also participate in enhancing cell cycle progression and cell proliferation via induction of cyclin D1. Moreover, RNF14 is crucial for colon cancer cell survival. It acts as a new enhancer of the Wnt-dependent transcriptional outputs that acts at the level of the T-cell factor/lymphoid enhancer factor (TCF/LEF)-beta-catenin complex. RNF14 contains an N-terminal RWD domain, and a C-terminal RBR domain. The RBR domain was previously known as RING-BetweenRING-RING domain or TRIAD [two RING fingers and a DRIL (double RING finger linked)] domain. Based on current understanding of the structural biology of RBR ligases, the nomenclature of RBR has been changed to RING1-BRcat (benign-catalytic)-Rcat (required-for-catalysis) recently. The RBR domain uses an auto-inhibitory mechanism to modulate ubiquitination activity, as well as a hybrid mechanism that combines aspects from both RING and HECT E3 ligase function to facilitate the ubiquitination reaction. This model corresponds to the BRcat domain of RNF14 that adopts the same fold as the Rcat domain while lacking the catalytic cysteine residue and ubiquitination activity.

Pssm-ID: 439002 Cd Length: 57 Bit Score: 41.91 E-value: 6.65e-05

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 24650756  929 CPRHVCHTCVSDDPSGKFQQLGSSKLAKCVRCPATYHQLSKC 970
Cdd:cd20341   10 CPRPSCQTPVILEPDENLGICPSCNYAFCTLCRETYHGVSPC 51

PWWP_NSD3_rpt1

cd20163

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

1050-1148

1.19e-04

Pssm-ID: 438991 Cd Length: 130 Bit Score: 43.38 E-value: 1.19e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1050 GEIVWAKFNNFRWWPAIIL--PPTEVPSNIlkKAHGENDFVVRFFGTH-DHGWISRRRVYLYiegdtgDGHKTKSQLFRN 1126
Cdd:cd20163    4 GDLVWSKVGTYPWWPCMVSsdPQLEVHTKI--NTRGAREYHVQFFSSQpERAWVHEKRVREY------KGHKQYEELLAE 75

                         90       100
                 ....*....|....*....|..
gi 24650756 1127 YTTGVEEASRFLPIIKARRQEQ 1148
Cdd:cd20163   76 ATKQASNHSEKQKIRKPRPQRE 97

PHD3_NSD3

cd15655

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

934-988

1.80e-04

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: 40.64 E-value: 1.80e-04

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 24650756  934 CHTCVSDDpsgKFQQLGSSKLAKCVRCPATYHQLSKCIPAGTQMLNTTNIICPRH 988
Cdd:cd15655    2 CTTCSMDK---DIHKASKGRMMRCLRCPVAYHTGDGCVAAGSVLVTPHIIICSNH 53

PHD_PHF21A

cd15523

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

1002-1041

2.02e-04

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: 40.07 E-value: 2.02e-04

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 24650756 1002 CYICVKGGELVCCETCPIAVHAHCRNIPIKTNESY--ICEEC 1041
Cdd:cd15523    2 CSVCRKSGELLMCDTCSLVYHLDCLDPPLKTIPKGmwICPKC 43

PWWP_HDGF

cd20148

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

1050-1124

2.16e-04

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: 41.55 E-value: 2.16e-04

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24650756 1050 GEIVWAKFNNFRWWPAIIlppTEVPSNILKKAhgENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKTKSQLF 1124
Cdd:cd20148    4 GDLVFAKMKGYPHWPARI---DEMPEAAVKST--ANKYQVFFFGTHETAFLGPKDLFPYEESKEKFGKPNKRKGF 73

SET_SMYD4

cd10536

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

1310-1350

2.89e-04

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: 43.83 E-value: 2.89e-04

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 24650756 1310 FMNHSCEPNcetqkwTVNCIHR--VGIFAIKDIPVNSELTFNY 1350
Cdd:cd10536  153 LLNHSCDPN------TIRSFYGntIVVRATRPIKKGEEITICY 189

PWWP_PWWP2A

cd20152

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

1043-1139

4.28e-04

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: 41.53 E-value: 4.28e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1043 SGRLPLYGEIVWAKFNNFRWWPAIILPPTevpsnILKKAHG---ENDFVVRFFGTHDHGWISRRRVYLYIEGDTGDGHKT 1119
Cdd:cd20152   16 DGRTICVGDIVWAKIYGFPWWPARILAIT-----VSRKDNGllvRQEARISWFGSPTTSFLALSQLAPFLENFQSRFNKK 90

                         90       100
                 ....*....|....*....|
gi 24650756 1120 KSQLFRNYTTGVEEASRFLP 1139
Cdd:cd20152   91 RKGLYRKAITEAAKAAKQLT 110

SET_SETD7

cd10530

SET domain found in SET domain-containing protein 7 (SETD7) and similar proteins; SETD7 (EC 2. ...

1245-1350

6.76e-04

SET domain found in SET domain-containing protein 7 (SETD7) and similar proteins; SETD7 (EC 2.1.1.43; also termed histone H3-K4 methyltransferase SETD7, H3-K4-HMTase SETD7, lysine N-methyltransferase 7 (KMT7) or SET7/9) is a histone-lysine N-methyltransferase that specifically monomethylates 'Lys-4' of histone H3. It plays a central role in the transcriptional activation of genes such as collagenase or insulin. Set7/9 also methylates non-histone proteins, including estrogen receptor alpha (ERa), suggesting it has a role in diverse biological processes. ERa methylation by Set7/9 stabilizes ERa and activates its transcriptional activities, which are involved in the carcinogenesis of breast cancer. In a high-throughput screen, treatment of human breast cancer cells (MCF7 cells) with cyproheptadine, a Set7/9 inhibitor, decreased the expression and transcriptional activity of ERa, thereby inhibiting estrogen-dependent cell growth.

Pssm-ID: 380928 Cd Length: 130 Bit Score: 41.13 E-value: 6.76e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1245 GFGLVNREPIAVGDFVIEYVGEVINHAEFQrrmeqkQRDRDENYYFLGVEKDFIIDAGPKGN--------LARFMNHSCE 1316
Cdd:cd10530   20 GEGLFAKVAVGPNTVMSFYNGVRITHQEVD------SRDWSLNGNTISLDEETVIDVPEPYNsvskycasLGHKANHSFT 93

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 24650756 1317 PNCETQKwtvnCIH-RVG----IFAIKDIPVNSELTFNY 1350
Cdd:cd10530   94 PNCIYDP----FVHpRFGpikcIRTLRAVEAGEELTVAY 128

PWWP_BS69

cd20159

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

1051-1127

7.79e-04

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: 39.89 E-value: 7.79e-04

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24650756 1051 EIVWAKFNNFRWWPAIILPPTevpsnilkkahgENDFVVRFFG-THDHGWISRRRVyLYIEGDTGDGHKTKSQLFRNY 1127
Cdd:cd20159    8 ELVWAKQKGFPYWPAKVIQKE------------DNQYDVRFFGgHHQRAWIPKENI-KPITTSPKQLKVKRTAGWNKA 72

PHD_TIF1gamma

cd15624

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

1001-1025

8.68e-04

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: 38.49 E-value: 8.68e-04

                         10        20
                 ....*....|....*....|....*
gi 24650756 1001 WCYICVKGGELVCCETCPIAVHAHC 1025
Cdd:cd15624    1 WCAVCQNGGDLLCCEKCPKVFHLTC 25

SET_KMT2E

cd19182

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

1259-1353

1.11e-03

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: 40.65 E-value: 1.11e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1259 FVIEYVGEVINHAEFQrrmeqkqrdrdENYYFLGVEKDFI------------IDAGPKGNLARFMNHSCEPNCETQKWTV 1326
Cdd:cd19182   32 LIIEYRGKFMLREQFE-----------ANGYFFKRPYPFVlfyskfhglemcVDARTFGNEARFIRRSCTPNAEVRHVIE 100

                         90       100
                 ....*....|....*....|....*..
gi 24650756 1327 NCIHRVGIFAIKDIPVNSELTFNYLWD 1353
Cdd:cd19182  101 DGTIHLYIYSIRSIPKGTEITIAFDFD 127

PWWP_PWWP2B

cd20153

PWWP domain found in PWWP domain-containing protein 2B (PWWP2B); PWWP2B is a paralog of PWWP2A, ...

1040-1143

1.59e-03

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: 39.94 E-value: 1.59e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24650756 1040 EC--ESGRLPLYGEIVWAKFNNFRWWPAIILpptevPSNILKKAHGE---NDFVVRFFGTHDHGWISRRRVYLYIEGDTG 1114
Cdd:cd20153    5 KCvtEEGRTVSVGDIVWGKIHGFPWWPARVL-----SISLSQKEDGEpswQEAKVSWFGSPTTSLLSVSKLSPFSEFFKL 79

                         90       100       110
                 ....*....|....*....|....*....|
gi 24650756 1115 DGHKTKSQLFRNYTTGVEEASRFL-PIIKA 1143
Cdd:cd20153   80 RFNRKKKGMYRKAITEAAKAAEHLtPEIRE 109

PWWP_NSD_rpt1