NCBI Conserved Domain Search

Chitinase [Carbohydrate transport and metabolism];

1873-2082

1.83e-05

Chitinase [Carbohydrate transport and metabolism];

Pssm-ID: 442692 [Multi-domain] Cd Length: 534 Bit Score: 50.14 E-value: 1.83e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1873 PVSTPSGLVPPLSPATMPGPTSQPQKVL-LPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLGPS 1951
Cdd:COG3469    11 TAGGASATAVTLLGAAATAASVTLTAATaTTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAAT 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1952 GPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPP 2031
Cdd:COG3469    91 STSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTT 170

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 672035050 2032 AAAILPKGPPASATATPAPTSPFPSATAGSMtyslvAPKAQRPSPKAPQKV 2082
Cdd:COG3469   171 TTTSASTTPSATTTATATTASGATTPSATTT-----ATTTGPPTPGLPKHV 216

Herpes_BLLF1

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...

1921-2109

3.08e-04

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 viral late glycoprotein, also termed gp350/220. It is the most abundantly expressed glycoprotein in the viral envelope of the Herpesviruses and is the major antigen responsible for stimulating the production of neutralising antibodies in vivo.

Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 46.45 E-value: 3.08e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1921 GTSSACSQTGTVTSYGPASSV-ALGFTSLGPSGPAFVQPLLSAGQAP--LLAPGQVG--VSPVPSPQLPPACTAPGGPvi 1995
Cdd:pfam05109  409 ATNATTTTHKVIFSKAPESTTtSPTLNTTGFAAPNTTTGLPSSTHVPtnLTAPASTGptVSTADVTSPTPAGTTSGAS-- 486

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1996 tafyPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAilpkgPPASATATPAPTSPFPSATAGSMTYSLVAPKAQRPS 2075
Cdd:pfam05109  487 ----PVTPSPSPRDNGTESKAPDMTSPTSAVTTPTPNAT-----SPTPAVTTPTPNATSPTLGKTSPTSAVTTPTPNATS 557

                          170       180       190
                   ....*....|....*....|....*....|....
gi 672035050  2076 PKAPQKVKAAIASIPVGSFESGTTGRTGPTPRQS 2109
Cdd:pfam05109  558 PTPAVTTPTPNATIPTLGKTSPTSAVTTPTPNAT 591

SepH

NF040712

septation protein SepH; Septation protein H (SepH) was firstly characterized in Streptomyces ...

1951-2090

1.19e-03

septation protein SepH; Septation protein H (SepH) was firstly characterized in Streptomyces venezuelae, and homologs were identified in Mycobacterium smegmatis. SepH contains a N-terminal DUF3071 domain and a conserved C-terminal region. It binds directly to cell division protein FtsZ to stimulate the assembly of FtsZ protofilaments.

Pssm-ID: 468676 [Multi-domain] Cd Length: 346 Bit Score: 43.60 E-value: 1.19e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1951 SGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSA--PLGPPSQAPPSLVYTVATST 2028
Cdd:NF040712  188 IDPDFGRPLRPLATVPRLAREPADARPEEVEPAPAAEGAPATDSDPAEAGTPDDLASArrRRAGVEQPEDEPVGPGAAPA 267

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 2029 TPPAAAILPKGPP-----ASATATPAPTSPFPSATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIP 2090
Cdd:NF040712  268 AEPDEATRDAGEPpapgaAETPEAAEPPAPAPAAPAAPAAPEAEEPARPEPPPAPKPKRRRRRASVP 334

Atrophin-1

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...

752-1044

3.95e-03

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.

Pssm-ID: 460830 [Multi-domain] Cd Length: 991 Bit Score: 42.83 E-value: 3.95e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   752 TPTPSTPAGFRAVSPAVPFSRSRQPSPLLLLPPPAGLTSDPGPSVRRVPAvqrdspvivrNPDVPLPSKFPGEVGAAGEA 831
Cdd:pfam03154  262 SPQPLPQPSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPP----------GPSPAAPGQSQQRIHTPPSQ 331

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   832 RAGGPGRGCRETPVPPGVASgkpslpPPLPAPVPITVPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVlvpSSY 911
Cdd:pfam03154  332 SQLQSQQPPREQPLPPAPLS------MPHIKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQMNSNLPPPPALKPL---SSL 402

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   912 PSHPAPKkevimgrpgtvwtnveprsvAVFPWHSLVPFLAPSQPDPsVQPSEAQQPASHPVASNQSKEPAESAAVAhEQP 991
Cdd:pfam03154  403 STHHPPS--------------------AHPPPLQLMPQSQQLPPPP-AQPPVLTQSQSLPPPAASHPPTSGLHQVP-SQS 460

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|...
gi 672035050   992 PGGTGGADPGRPPGATCPESPGPGPPLTLGGVDPGKSLPPTTEEEAPGPPGEP 1044
Cdd:pfam03154  461 PFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCP 513

PRK07003

DNA polymerase III subunit gamma/tau;

1552-1694

6.80e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 235906 [Multi-domain] Cd Length: 830 Bit Score: 41.76 E-value: 6.80e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1552 SAPAPSLAYGAPAAPLCRPAATMVTNVVRPVSSTPVPIASKPFPTSGRAEASSNDTVGARTEMGTGSRVPGGSPLGVSLV 1631
Cdd:PRK07003  383 PGARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSR 462

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672035050 1632 YSDKKSAAATSPAPHLVAGPllgtvgKAPATVTNllvgtpgygAPASPAVQFIAQGAPGSATP 1694
Cdd:PRK07003  463 CDERDAQPPADSGSASAPAS------DAPPDAAF---------EPAPRAAAPSAATPAAVPDA 510

rad23

TIGR00601

UV excision repair protein Rad23; All proteins in this family for which functions are known ...

2002-2073

8.81e-03

UV excision repair protein Rad23; All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]

Pssm-ID: 273167 [Multi-domain] Cd Length: 378 Bit Score: 41.03 E-value: 8.81e-03

                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672035050  2002 SPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAILPKGPPASATATPAPTSPFPSATA-GSMTYSLVAPKAQR 2073
Cdd:TIGR00601   84 VAPPAATPTSAPTPTPSPPASPASGMSAAPASAVEEKSPSEESATATAPESPSTSVPSsGSDAASTLVVGSER 156

Name

Accession

Description

Interval

E-value

HMG-box_CIC-like

cd21990

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a ...

1105-1182

2.23e-59

Pssm-ID: 438806 [Multi-domain] Cd Length: 78 Bit Score: 198.45 E-value: 2.23e-59

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1182
Cdd:cd21990     1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78

HMG-box_HBP2

cd21989

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

1107-1175

4.48e-34

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

Pssm-ID: 438805 [Multi-domain] Cd Length: 69 Bit Score: 125.98 E-value: 4.48e-34

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1175
Cdd:cd21989     1 RRPMNAFLLFCKRHRSLVRERHPRLDNRGITKILGDWWAVLDPDEKQKYTDLAKQYKEAFMKANPNFKW 69

HMG-box_SOX

cd22004

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

1105-1178

2.75e-22

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

Pssm-ID: 438820 [Multi-domain] Cd Length: 75 Bit Score: 92.61 E-value: 2.75e-22

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNK 1178
Cdd:cd22004     1 HIKRPMNAFMVWSQQERKKIAKQNPKLHNSEISKILGKEWKKLTEEEKRPYVEEAERLREEHKKEYPDYKYRPR 74

HMG-box_ROX1-like

cd01389

high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar ...

1106-1174

1.32e-21

high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar proteins; This family includes class I members of the HMG-box superfamily of DNA-binding proteins, including Saccharomyces cerevisiae repressor ROX1, Schizosaccharomyces pombe mating-type M-specific polypeptide Mc (mat-Mc), Schizosaccharomyces pombe transcription factor ste11, Podospora anserina MAT+ sexual cell fertilization-promoting factor (FPR1), Podospora anserina sporulation minus regulator 2 (SMR2) and Candida albicans repressor of filamentous growth 1 (RFG1). These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. ROX1, also called heme-dependent repression factor, or hypoxic function repressor, is a transcription factor that represses the expression of HEM13, COX5B, ANB1, CYC7 or AAC3. It binds to the DNA sequence 5'-RRRTAACAAGAG-3'. mat-Mc belongs to the mating type protein family, which contains sequence specific DNA-binding proteins that act as master switches in yeast differentiation by controlling gene expression in a cell type-specific fashion. mat-Mc is a positive regulator of MFM genes and is required for conjugation and efficient meiosis. Its HMG box recognizes the DNA sequence 5'-AACAAAG-3'. Ste11 is a key transcription factor for sexual development. It activates the transcription of the matp, matm, mei2, mfm, ste6 and rgs1 genes. It binds specifically to a DNA fragment carrying a 10-base motif 5'-TTCTTTGTTY-3'. FPR1 controls fertilization, probably by determining the mating type. SMR2 is a transcription factor that is required for post-fertilization events. It is required for the developmental events that occur in the female organ after fertilization. RFG1 is a transcription regulator that functions in both the positive and negative regulation of filamentous growth, depending upon environmental conditions.

Pssm-ID: 438791 [Multi-domain] Cd Length: 72 Bit Score: 90.34 E-value: 1.32e-21

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1174
Cdd:cd01389     1 IPRPPNAFILFRKEKHKQLRAQNPGLTNSEISKIIGKMWKNLSEEEKEPYKELAEEEKEEHKLKYPDYK 69

DUF4819

pfam16090

Domain of unknown function (DUF4819); This presumed domain is functionally uncharacterized. ...

252-345

7.99e-21

Domain of unknown function (DUF4819); This presumed domain is functionally uncharacterized. This domain family is found in eukaryotes, and is typically between 82 and 99 amino acids in length.

Pssm-ID: 465014 Cd Length: 84 Bit Score: 88.89 E-value: 7.99e-21

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   252 LDATPPPGALMVGTAVCTCV----EPGVAAYREGVVVEVATKPAAYKVRLNPGPSShagspgtlpqaqqplhrepEEAIW 327
Cdd:pfam16090    4 LDASPSLSDVAVGTRVCVRLdpglEGGENVYREGVVVEVNNKPVRYVVKVSGGDEA-------------------KGGVW 64

                           90
                   ....*....|....*...
gi 672035050   328 VTRSSLRLLRPPWEPEAL 345
Cdd:pfam16090   65 VKRADLRLLRPPWWDELE 82

HMG-box_SoxH_SOX30

cd22033

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 30 (SOX30) and ...

1105-1176

7.31e-20

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 30 (SOX30) and similar proteins; SOX-30 is a crucial transcription factor that controls the transition from a late meiotic to a post-meiotic gene expression program and subsequent round spermatid development. It specially prevents Wnt-signaling to suppress metastasis. SOX-30 binds to the DNA sequence 5'-ACAAT-3' and shows a preference for guanine residues surrounding this core motif. SOX-30 is the only member of the group H of SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438842 [Multi-domain] Cd Length: 75 Bit Score: 85.55 E-value: 7.31e-20

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWC 1176
Cdd:cd22033     1 HIKRPMNAFMVWARIHRPALAKANPNANNADISVQLGEEWNKLTEEQKKPYYDEAQKLKEQHRKEHPGWVYQ 72

HMG

smart00398

high mobility group;

1105-1174

9.62e-19

high mobility group;

Pssm-ID: 197700 [Multi-domain] Cd Length: 70 Bit Score: 82.36 E-value: 9.62e-19

                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1174
Cdd:smart00398    1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70

HMG-box_HBP1

cd21988

high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar ...

1107-1174

1.95e-18

high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar proteins; HBP1, also called HMG box transcription factor 1, or high mobility group box transcription factor 1, is a transcriptional repressor that binds to the promoter region of target genes. It plays a role in the regulation of the cell cycle and the Wnt pathway. HBP1 binds preferentially to the sequence 5'-TTCATTCATTCA-3'.

Pssm-ID: 438804 [Multi-domain] Cd Length: 69 Bit Score: 81.35 E-value: 1.95e-18

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPD-WK 1174
Cdd:cd21988     1 KRPMNAFMLFAKKYRVEYTQMHPGKDNRAISVILGDRWKKMKNEERRVYTLEAKALAEEHKRLHPDcWK 69

HMG-box_SoxA_SoxB_SoxG

cd22028

high mobility group (HMG)-box found in group A, group B and group G of SRY-related ...

1105-1182

2.16e-18

high mobility group (HMG)-box found in group A, group B and group G of SRY-related high-mobility group (HMG) box (Sox) transcription factors; This subfamily includes SoxA, SoxB, and SoxG proteins. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors. SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-5 is the only member of group G Sox transcription factors. It is also called SOX-12, SOX-20, SOX-26, or SOX-27. SOX-5 is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types.

Pssm-ID: 438837 [Multi-domain] Cd Length: 76 Bit Score: 81.63 E-value: 2.16e-18

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1182
Cdd:cd22028     1 RVKRPMNAFMVWSREQRRKIAQENPKMHNSEISKRLGAEWKQLSEDEKRPFIDEAKRLRAQHMKEHPDYKY--RPRRK 76

HMG_box

pfam00505

HMG (high mobility group) box;

1106-1173

2.84e-17

HMG (high mobility group) box;

Pssm-ID: 459837 [Multi-domain] Cd Length: 68 Bit Score: 78.04 E-value: 2.84e-17

                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050  1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1173
Cdd:pfam00505    1 PKRPMSAFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAEKEKARYEKEHPEY 68

HMG-box_EGL13-like

cd22042

high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 ...

1105-1175

9.17e-17

high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 (EGL-13) and similar proteins; EGL-13 may act as a transcription factor that is required for uterine cell fate decisions in Caenorhabditis elegans. It controls genes required for the specification and differentiation of O(2) and CO(2)-sensing neurons and for maintaining URX sensory neuronal cell fate.

Pssm-ID: 438848 [Multi-domain] Cd Length: 78 Bit Score: 76.86 E-value: 9.17e-17

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1175
Cdd:cd22042     2 HIKRPMNAFMVWAKDERRKILKACPDMHNSNISKILGAKWKAMSNAEKQPYYEEQSRLSKLHMEKHPDYRY 72

HMG-box_SF

cd00084

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

1108-1166

2.76e-16

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

Pssm-ID: 438789 [Multi-domain] Cd Length: 59 Bit Score: 74.86 E-value: 2.76e-16

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1166
Cdd:cd00084     1 RPLSAYLLFSKEKRPKLKKENPDLSFTEISKLLGERWKELSEEEKQPYEEKAKEDKERY 59

HMG-box_SoxB

cd01388

high mobility group (HMG)-box found in group B SRY-related high-mobility group (HMG) box (Sox) ...

1104-1185

1.16e-15

high mobility group (HMG)-box found in group B SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-1 is involved in the regulation of embryonic development and cell fate determination. It also acts as a tumor suppressor that plays an anti-tumorigenicity role in different cells and its expression is inhibited in a variety of cancers. SOX-2 plays an important role in various phases of embryonic development, including cell fate and differentiation. Its overexpression and gene amplification may be associated with tumor aggression and metastasis in various cancer types, including breast, prostate, lung, ovarian and colon cancer. SOX-3 is required during the formation of the hypothalamic-pituitary axis. It plays a role in both normal neural development and carcinogenesis. SOX-14, also called SOX-28, acts as a negative regulator of transcription. It is mainly involved in the regulation of neural development. It can also promote proliferation and invasion capacity of cervical cancer cells by activating the Wnt/beta-catenin pathway. SOX-21, also called SOX-A, or SOX-25, promotes the progression of vertebrate neurogenesis.

Pssm-ID: 438790 [Multi-domain] Cd Length: 80 Bit Score: 73.79 E-value: 1.16e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1104 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 1183
Cdd:cd01388     1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSEAEKRPFIDEAKRLRALHMKEHPDYKY--RPRRKT 78


                  ..
gi 672035050 1184 SS 1185
Cdd:cd01388    79 KT 80

HMG-box_SoxD

cd22030

high mobility group (HMG)-box found in group D SRY-related high-mobility group (HMG) box (Sox) ...

1105-1182

4.77e-15

high mobility group (HMG)-box found in group D SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxD transcription factors includes three members, Sox5, Sox6, and Sox13. They function as important transcriptional regulators of glial development in the central nervous system. SoxD proteins influence multiple stages of oligodendrocyte development and modulate SoxE protein function. This subfamily also contains SoxD transcription factor homolog EGL-13, which specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans. SOX-5 plays important roles in various cancer types. It binds specifically to the DNA sequence 5'-AACAAT-3'. SOX-6 plays a key role in cell proliferation, differentiation, and cell fate determination, as well as neurogenesis and skeleton formation. It is a tumor suppressor and downregulated in various cancers. SOX-6 binds specifically to the DNA sequence 5'-AACAAT-3'. SOX-13, also called Islet cell antigen 12 (ICA12), or type 1 diabetes auto-antigen ICA12, modulates T cell specification and is an autoimmune antigen. It binds to the sequence 5'-AACAAT-3'.

Pssm-ID: 438839 [Multi-domain] Cd Length: 77 Bit Score: 71.96 E-value: 4.77e-15

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1182
Cdd:cd22030     1 HIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKSMSNQEKQPYYEEQARLSKQHLEKYPDYKY--KPRPK 76

HMG-box_SoxE

cd22031

high mobility group (HMG)-box found in group E SRY-related high-mobility group (HMG) box (Sox) ...

1105-1175

8.01e-15

high mobility group (HMG)-box found in group E SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxE transcription factors includes three members: Sox8, Sox9, and Sox10. They function as important transcriptional regulators of neural differentiation and nervous system development. They regulate mammalian development directing sex determination, gliogenesis, pancreas specification and neural crest development. SOX-8 is specifically expressed by M cells in the intestinal epithelium. It acts as a transcription factor necessary for the maintenance of spermatogenesis. It may play a role in central nervous system, limb and facial development. SOX-9 is involved in cell differentiation, sex determination, and tumorigenesis. It plays a role in chondrocyte differentiation and skeletal development. SOX-10 plays a central role in the development of melanocytes and glial cells from neural crest precursors.

Pssm-ID: 438840 [Multi-domain] Cd Length: 75 Bit Score: 71.27 E-value: 8.01e-15

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1175
Cdd:cd22031     1 HVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLSESEKRPFIEEAERLRVQHKKDHPDYKY 71

HMG-box_TCF7-like

cd21996

high mobility group (HMG)-box found in the transcription factor 7 (TCF-7)-like family; The ...

1105-1182

2.35e-14

high mobility group (HMG)-box found in the transcription factor 7 (TCF-7)-like family; The TCF7-like family includes TCF-7, TCF7-like 1 (TF7L1), lymphoid enhancer-binding factor 1 (LEF-1), and similar proteins. TCF-7, also called T-cell-specific transcription factor 1, or T-cell factor 1 (TCF-1), is a T lymphocyte-specific transcriptional activator involved in T-cell lymphocyte differentiation. It is necessary for the survival of CD4(+) CD8(+) immature thymocytes. It binds to the T-lymphocyte-specific enhancer element (5'-WWCAAAG-3') found in the promoter of the CD3E gene. TF7L1, also called HMG box transcription factor 3 (TCF-3), participates in the Wnt signaling pathway. It binds to DNA and acts as a repressor in the absence of CTNNB1, and as an activator in its presence. TF7L2, also called HMG box transcription factor 4, or T-cell-specific transcription factor 4, or T-cell factor 4, or TCF-4, participates in the Wnt signaling pathway and modulates MYC expression by binding to its promoter in a sequence-specific manner. It acts as a repressor in the absence of CTNNB1, and it activates transcription from promoters with several copies of the TCF motif 5'-CCTTTGATC-3' in the presence of CTNNB1. LEF-1, also called T cell-specific transcription factor 1-alpha (TCF1-alpha), is a transcription factor that binds DNA in a sequence-specific manner. It may participate in the Wnt signaling pathway. All family members contain one HMG-box domain.

Pssm-ID: 438812 [Multi-domain] Cd Length: 85 Bit Score: 70.44 E-value: 2.35e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK-----WCNKD 1179
Cdd:cd21996     1 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSardnyGKKKK 80


                  ...
gi 672035050 1180 RKK 1182
Cdd:cd21996    81 RKR 83

HMG-box_SoxF

cd22032

high mobility group (HMG)-box found in group F SRY-related high-mobility group (HMG) box (Sox) ...

1105-1175

2.96e-14

high mobility group (HMG)-box found in group F SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxF transcription factors includes three members: Sox7, Sox17, and Sox18. They regulate endothelial cell fate as well as development and differentiation of the developing heart, blood cells, and lymphatic vessels.

Pssm-ID: 438841 [Multi-domain] Cd Length: 76 Bit Score: 69.75 E-value: 2.96e-14

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1175
Cdd:cd22032     1 RIRRPMNAFMVWAKDERKRLADENPDLHNAELSKMLGKKWKSLSLAEKRPFVEEAERLRVQHMQDYPNYKY 71

HMG-box_SoxC

cd22029

high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) ...

1105-1182

6.62e-14

high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxC transcription factors includes three members: SOX4, SOX11 and SOX12. They play key roles, often in redundancy, in multiple developmental pathways, including neurogenesis and skeletogenesis. SOX-4 is a transcriptional activator that promotes neuronal differentiation both in the adult and embryonic neural progenitors. It binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif. SOX-4 is abnormally expressed in various cancers. SOX-11 is a neural transcriptional factor involved in precursor survival, neuronal fate determination, migration and morphogenesis. SOX-12, also called SOX-22, is a transcription factor essential for embryonic development and cell fate determination. It binds to the sequence 5'-AACAAT-3'.

Pssm-ID: 438838 [Multi-domain] Cd Length: 76 Bit Score: 68.62 E-value: 6.62e-14

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1182
Cdd:cd22029     1 HIKRPMNAFMVWSQIERRKIMEQQPDMHNAEISKRLGKRWKLLSDSEKIPFIEEAERLRLLHMQEYPDYKY--RPRKK 76

HMG-box_SoxF_SOX7

cd22046

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 7 (SOX7) and similar ...

1096-1182

1.30e-13

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 7 (SOX7) and similar proteins; SOX-7 is an endothelial-associated transcription factor that acts as a tumor suppressor in a number of cancer types. It binds the DNA sequence 5'-AACAAT-3'. SOX-7 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438849 [Multi-domain] Cd Length: 88 Bit Score: 68.56 E-value: 1.30e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1096 RSP-NKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1174
Cdd:cd22046     1 RSPgEKGSEPRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGKSWKALTPSQKRPYVEEAERLRVQHMQDYPNYK 80


                  ....*...
gi 672035050 1175 WCNKDRKK 1182
Cdd:cd22046    81 YRPRRKKQ 88

HMG-box_SoxF_SOX18

cd22048

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 18 (SOX18) and ...

1106-1182

1.68e-13

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 18 (SOX18) and similar proteins; SOX-18 is a transcription factor involved in the development of cardiovascular and lymphatic vessels during embryonic development. It binds to the consensus sequence 5'-AACAAAG-3' and is able to trans-activate transcription via this site. SOX-18 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438851 [Multi-domain] Cd Length: 80 Bit Score: 67.79 E-value: 1.68e-13

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1182
Cdd:cd22048     4 IRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGQSWKSLSAAEKRPFVEEAERLRVQHLQDHPNYKYRPRRKKQ 80

PHA03247

large tegument protein UL36; Provisional

1638-2180

6.37e-13

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 75.36 E-value: 6.37e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1638 AAATSPAPHLVAGPLLGTVGKAPATVTNLLVGTPGYGAPASPAVQFIAQGAPGsatpagSGASAGSGPNGPVPLGILQPG 1717
Cdd:PHA03247 2445 AGLAADGDPFFARTILGAPFSLSLLLGELFPGAPVYRRPAEARFPFAAGAAPD------PGGGGPPDPDAPPAPSRLAPA 2518

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1718 ALGKAGGITQVQYILPTLPQQLQVAPAPAPAPGTKAAAPSGPAPTTSIRFTLP-PGTSTNGKVLAATAPTAGIPILQSVP 1796
Cdd:PHA03247 2519 ILPDEPVGEPVHPRMLTWIRGLEELASDDAGDPPPPLPPAAPPAAPDRSVPPPrPAPRPSEPAVTSRARRPDAPPQSARP 2598

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1797 SAP-PPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVS 1875
Cdd:PHA03247 2599 RAPvDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASS 2678

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1876 TPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYVQSAGGHTLPLGTSSAcsqtgtvtsygPASSVALGFTSLGPSGPAf 1955
Cdd:PHA03247 2679 PPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAA-----------RQASPALPAAPAPPAVPA- 2746

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1956 vQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAI 2035
Cdd:PHA03247 2747 -GPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPA 2825

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2036 LPKGPPASATATPAPTSPFPSATAGSMTYSLV--APKAQRPSPKAPQKVKAAIASIPVGSFESgttgrtgPTPRQSLDSg 2113
Cdd:PHA03247 2826 GPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVApgGDVRRRPPSRSPAAKPAAPARPPVRRLAR-------PAVSRSTES- 2897

                         490       500       510       520       530       540
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 2114 varePAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSSDWRVP 2180
Cdd:PHA03247 2898 ----FALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVP 2960

HMG-box_SoxF_SOX17

cd22047

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and ...

1106-1175

1.12e-12

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and similar proteins; SOX-17 is a developmental transcription regulator involved in endoderm formation, angiogenesis, and carcinogenesis. It acts as a tumor suppressor and modulates WNT signaling. SOX-17 binds target promoter DNA and bends the DNA. It binds to the sequences 5'-AACAAT-'3 or 5'-AACAAAG-3'. SOX-17 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438850 [Multi-domain] Cd Length: 81 Bit Score: 65.49 E-value: 1.12e-12

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1175
Cdd:cd22047     7 IRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQDHPNYKY 76

HMG-box_SoxG_SOX15

cd22035

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 15 (SOX15) and ...

1104-1183

2.16e-12

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 15 (SOX15) and similar proteins; SOX-15, also called SOX-12, SOX-20, SOX-26, or SOX-27, is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types. SOX-5 is the only member of group G SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438844 [Multi-domain] Cd Length: 84 Bit Score: 64.72 E-value: 2.16e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1104 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 1183
Cdd:cd22035     6 EKVKRPMNAFMVWSSAQRRQMAQEHPKMHNSEISKRLGAAWKLLPEAEKRPFVEEAKRLRARHMRDYPDYKY--RPRRKG 83

HMG-box_SoxC_SOX12

cd22038

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 12 (SOX12) and ...

1100-1183

1.07e-10

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 12 (SOX12) and similar proteins; SOX-12, also called SOX-22, is a transcription factor essential for embryonic development and cell fate determination. It binds to the sequence 5'-AACAAT-3'. SOX-12 belongs to the group C of SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438847 [Multi-domain] Cd Length: 88 Bit Score: 60.08 E-value: 1.07e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1100 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKD 1179
Cdd:cd22038     6 KTPSGHIKRPMNAFMVWSQIERRKIMEQWPDMHNAEISKRLGRRWKLLQDYEKIPFIKEAERLRLKHMADYPDYKY--RP 83


                  ....
gi 672035050 1180 RKKS 1183
Cdd:cd22038    84 RKKS 87

HMG-box_NHP6-like

cd01390

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

1093-1166

6.40e-10

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

Pssm-ID: 438792 [Multi-domain] Cd Length: 81 Bit Score: 57.76 E-value: 6.40e-10

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 672035050 1093 KDGRSPNKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1166
Cdd:cd01390     1 KKKKGRKKKDPNAPKRGLSAYMFFSQDNREKVKEENPDATFGEVGKLLGEKWKELSEEEKAPYEEKAAKDKKRY 74

HMG-box_SoxA_SRY

cd22034

high mobility group (HMG)-box found in sex-determining region Y protein (SRY) and similar ...

1103-1182

6.46e-10

high mobility group (HMG)-box found in sex-determining region Y protein (SRY) and similar proteins; SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438843 [Multi-domain] Cd Length: 85 Bit Score: 57.72 E-value: 6.46e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1103 KDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1182
Cdd:cd22034     2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAK 81

HMG-box_SoxC_SOX4

cd22036

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar ...

1105-1182

1.39e-09

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar proteins; SOX-4 is a transcriptional activator that promotes neuronal differentiation both in the adult and embryonic neural progenitors. It binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif. SOX-4 is abnormally expressed in various cancers. SOX-4 belongs to group C SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438845 [Multi-domain] Cd Length: 79 Bit Score: 56.68 E-value: 1.39e-09

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1105 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1182
Cdd:cd22036     2 HIKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIREAERLRLKHMADYPDYKY--RPRKK 77

HMG-box_SoxC_SOX11

cd22037

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 11 (SOX11) and ...

1100-1185

1.57e-09

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 11 (SOX11) and similar proteins; SOX-11 is a neural transcriptional factor involved in precursor survival, neuronal fate determination, migration and morphogenesis. SOX-11 belongs to group C SRY-related high-mobility group (HMG) box (Sox) transcription factors.

Pssm-ID: 438846 [Multi-domain] Cd Length: 92 Bit Score: 57.03 E-value: 1.57e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1100 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKD 1179
Cdd:cd22037     6 KTATGHIKRPMNAFMVWSKIERRKIMEQSPDMHNAEISKRLGKRWKMLKDSEKIPFIREAERLRLKHMADYPDYKYRPRK 85


                  ....*.
gi 672035050 1180 RKKSSS 1185
Cdd:cd22037    86 KPKVDP 91

HMG-box_SSRP1-like

cd21994

high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and ...

1108-1174

1.37e-08

high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and similar proteins; SSRP1, also called FACT complex subunit SSRP1, chromatin-specific transcription elongation factor 80 kDa subunit, facilitates chromatin transcription complex 80 kDa subunit (FACT 80 kDa subunit or FACTp80), facilitates chromatin transcription complex subunit SSRP1, recombination signal sequence recognition protein 1, or T160, is a factor that facilitates transcript elongation through nucleosomes. It is a component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication, and DNA repair.

Pssm-ID: 438810 [Multi-domain] Cd Length: 67 Bit Score: 53.46 E-value: 1.37e-08

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1174
Cdd:cd21994     1 RPMSAYMLWLNENREKIKKENPGISVTEISKKAGEIWKELDEEDKEKWEQKAEKAKERYDKAMKEYK 67

HMG-box_HMG20

cd21980

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

1107-1164

1.80e-08

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

Pssm-ID: 438796 [Multi-domain] Cd Length: 81 Bit Score: 53.32 E-value: 1.80e-08

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1164
Cdd:cd21980     3 KAPLTGYVRFLNERREKLRAENPDLSFPEITKILGAEWSSLSAEEKQKYLDEAEKDKE 60

HMG-box_ABF2_IXR1-like_rpt2

cd22012

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

1108-1157

6.75e-08

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

Pssm-ID: 438828 [Multi-domain] Cd Length: 64 Bit Score: 51.13 E-value: 6.75e-08

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 1157
Cdd:cd22012     4 RPASAYFLFAKEVRPKLKEENPNEKYTDITKLISEKWRSLDESEKEPYQE 53

PHA03247

large tegument protein UL36; Provisional

1659-2115

1.28e-07

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 57.64 E-value: 1.28e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1659 APATVTNLLVGTPGYGA-PASPAVQfiAQGAPGSATPAGSGASAGSGPNGPvPLGILQPGALGKAGGITQVQYILPTlPQ 1737
Cdd:PHA03247 2559 APPAAPDRSVPPPRPAPrPSEPAVT--SRARRPDAPPQSARPRAPVDDRGD-PRGPAPPSPLPPDTHAPDPPPPSPS-PA 2634

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1738 QLQVAPAPAPAPGTKAAAPSGPAPTtsiRFTLPPGTSTNGKVLAATAPTAGipilQSVPSAPPPKAQSVSPVQATPSGGS 1817
Cdd:PHA03247 2635 ANEPDPHPPPTVPPPERPRDDPAPG---RVSRPRRARRLGRAAQASSPPQR----PRRRAARPTVGSLTSLADPPPPPPT 2707

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1818 AQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPFSVPvqNGAQQP-SKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQP 1896
Cdd:PHA03247 2708 PEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVP--AGPATPgGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTR 2785

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1897 QKV--LLPSSTRITYVQSAGGHTLP-LGTSSACSQTGTVTSYGPASSVALGFTSLGPSGPafVQPLLSAGQAplLAPGQV 1973
Cdd:PHA03247 2786 PAVasLSESRESLPSPWDPADPPAAvLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGP--PPPSLPLGGS--VAPGGD 2861

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1974 GVSPVPSPQLPPACTAPGGPVIT--AFYPGSPAPTSAPLGPPSQAPPSlvytvaTSTTPPAAAILPKGPPASATATPAPT 2051
Cdd:PHA03247 2862 VRRRPPSRSPAAKPAAPARPPVRrlARPAVSRSTESFALPPDQPERPP------QPQAPPPPQPQPQPPPPPQPQPPPPP 2935

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2052 SPFPSATAGSMTYSLVAPKAQRPSPK------APQKVKAAIASIPVGSFESGTTGRTGPTPRQSLDSGVA 2115
Cdd:PHA03247 2936 PPRPQPPLAPTTDPAGAGEPSGAVPQpwlgalVPGRVAVPRFRVPQPAPSREAPASSTPPLTGHSLSRVS 3005

HMG-box_AtHMGB6-like_rpt1

cd22006

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

1107-1168

1.45e-07

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

Pssm-ID: 438822 [Multi-domain] Cd Length: 68 Bit Score: 50.53 E-value: 1.45e-07

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1168
Cdd:cd22006     1 KKPKTAYFLWCKDQREEVKKENPNADFSEVSKILGAKWKNLSEEEKKPYEEKYKEEKEKYLK 62

PHA03247

large tegument protein UL36; Provisional

749-1060

3.33e-07

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 56.49 E-value: 3.33e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  749 VSHTPTPSTPAGFRAVSPAVPFSRSrQPSPLLLLPPPAGLTSDPGPSVRRVPAvqrdSPVIVRNPDVPLPSKFPgevgaa 828
Cdd:PHA03247 2716 VSATPLPPGPAAARQASPALPAAPA-PPAVPAGPATPGGPARPARPPTTAGPP----APAPPAAPAAGPPRRLT------ 2784

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  829 gearaggpgrgcretpvPPGVASGKPSLPPPLPAPVpitvPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVLVP 908
Cdd:PHA03247 2785 -----------------RPAVASLSESRESLPSPWD----PADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPP 2843

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  909 SSYPSHPAPKKEVIMG-----RPGTVWTNVEPRSVAVFPWHSLVPFLAPSQPDPSVQPSEAQQPASHPVASNQSKEPAES 983
Cdd:PHA03247 2844 GPPPPSLPLGGSVAPGgdvrrRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQP 2923

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  984 AAVAHEQPPGGTGGADPGRPP----GATCPESPGPGPPLTLGGVDPGKSLPPTTEEEAPGPPGE-PRLDSETESDHDDAF 1058
Cdd:PHA03247 2924 PPPPQPQPPPPPPPRPQPPLApttdPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREaPASSTPPLTGHSLSR 3003


                  ..
gi 672035050 1059 LS 1060
Cdd:PHA03247 3004 VS 3005

NHP6B

COG5648

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

1077-1221

5.15e-07

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

Pssm-ID: 227935 [Multi-domain] Cd Length: 211 Bit Score: 52.94 E-value: 5.15e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1077 TQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYH 1156
Cdd:COG5648    50 TKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYY 121

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1157 DLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPASLGLAGGHKETRERSMSETG----TAAAPGVSSEL 1221
Cdd:COG5648   122 KEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlveeTKIISKAWSEL 185

HMG-box_AtHMGB6-like_rpt3

cd22008

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

1098-1169

5.33e-07

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

Pssm-ID: 438824 [Multi-domain] Cd Length: 78 Bit Score: 49.18 E-value: 5.33e-07

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1098 PNKREKdhirrPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1169
Cdd:cd22008     7 PNKPKK-----PASSYLLFGKEYRKKLQEERPGANNATVTALISLKWKELGEEEKQVYNDKAAVLMEKYKKE 73

HMG-box_HMGB_rpt2

cd21979

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

1107-1168

5.51e-07

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

Pssm-ID: 438795 [Multi-domain] Cd Length: 71 Bit Score: 48.95 E-value: 5.51e-07

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1168
Cdd:cd21979     4 KRPPSAFFLFCSEHRPKIKGEHPGLSIGDVAKKLGEMWNNTSAKDKQPYEKKAAKLKEKYEK 65

PTZ00199

high mobility group protein; Provisional

1089-1163

1.24e-06

high mobility group protein; Provisional

Pssm-ID: 185511 [Multi-domain] Cd Length: 94 Bit Score: 48.70 E-value: 1.24e-06

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 1089 SSSEKDGRSPNKREKDHI--RRPMNAFMIFSKRHRALVHQRHPN--QDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 1163
Cdd:PTZ00199    4 KQGKVLVRKNKRKKKDPNapKRALSAYMFFAKEKRAEIIAENPElaKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82

HMG-box_ABF2-like_rpt1

cd22010

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

1107-1173

1.30e-06

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

Pssm-ID: 438826 [Multi-domain] Cd Length: 68 Bit Score: 47.92 E-value: 1.30e-06

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1173
Cdd:cd22010     2 KRPLSAYFLYFQEHRSDFVKENPDAKMTEISKIGGDKWKNLSADDKKKYEDDFQRELSEYQKAKAEF 68

PHA03247

large tegument protein UL36; Provisional

1787-2194

1.53e-06

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 54.17 E-value: 1.53e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1787 AGIPILQSVPSAPPPKA-QSVSPVQATP--SGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPlPLVSSPFSVPVQNGAQQP 1863
Cdd:PHA03247 2548 AGDPPPPLPPAAPPAAPdRSVPPPRPAPrpSEPAVTSRARRPDAPPQSARPRAPVDDRGDP-RGPAPPSPLPPDTHAPDP 2626

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1864 skiiqltPVPVSTPSGLVPPLSPATMPGPTSQPQKVllPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPASSVAL 1943
Cdd:PHA03247 2627 -------PPPSPSPAANEPDPHPPPTVPPPERPRDD--PAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTS 2697

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1944 GFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSlvyt 2023
Cdd:PHA03247 2698 LADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPA---- 2773

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2024 vATSTTPPAAAILPKGPPASATATPAPTSPFPSATAGSMTYSLVA------PKAQRPSPKAPQKVKAAIASIPVGSFES- 2096
Cdd:PHA03247 2774 -APAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAAlppaasPAGPLPPPTSAQPTAPPPPPGPPPPSLPl 2852

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2097 -GTTGRTGPTPRQSLDSGVAREPAAPeselegqptppapppptetWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSS 2175
Cdd:PHA03247 2853 gGSVAPGGDVRRRPPSRSPAAKPAAP-------------------ARPPVRRLARPAVSRSTESFALPPDQPERPPQPQA 2913

                         410
                  ....*....|....*....
gi 672035050 2176 DWRVPGLGLESRGEPPTPP 2194
Cdd:PHA03247 2914 PPPPQPQPQPPPPPQPQPP 2932

PRK12323

DNA polymerase III subunit gamma/tau;

1949-2188

1.98e-06

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 53.34 E-value: 1.98e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1949 GPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPV--ITAFYPGSPAPTSAPLGPPSQAPPSLVYTVAT 2026
Cdd:PRK12323  370 GGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAarAVAAAPARRSPAPEALAAARQASARGPGGAPA 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2027 STTPPAAAilpkgpPASATATPAPTSPFPSATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRTGPTP 2106
Cdd:PRK12323  450 PAPAPAAA------PAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGWVA 523

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2107 RQSLDSGVAREPAAPESELEGqptppappppTETWPPTARSSPPPPLPAEERPGTKGPETASKFPsssSDWRVPGLGLES 2186
Cdd:PRK12323  524 ESIPDPATADPDDAFETLAPA----------PAAAPAPRAAAATEPVVAPRPPRASASGLPDMFD---GDWPALAARLPV 590


                  ..
gi 672035050 2187 RG 2188
Cdd:PRK12323  591 RG 592

PRK07764

DNA polymerase III subunits gamma and tau; Validated

1781-2167

2.37e-06

DNA polymerase III subunits gamma and tau; Validated

Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 53.07 E-value: 2.37e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1781 AATAPTAGIPILQSVPSAPPPKAQSVSPvQATPSGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGA 1860
Cdd:PRK07764  402 AAAAPAAAPAPAAAAPAAAAAPAPAAAP-QPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAP 480

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1861 QQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVL--LPSSTRIT------YVQSAG--GHTLPLGTSS-----A 1925
Cdd:PRK07764  481 APAPPAAPAPAAAPAAPAAPAAPAGADDAATLRERWPEILaaVPKRSRKTwaillpEATVLGvrGDTLVLGFSTgglarR 560

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1926 CSQTGTVTSYGPASSVALGFT------------SLGPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTAPGGP 1993
Cdd:PRK07764  561 FASPGNAEVLVTALAEELGGDwqveavvgpapgAAGGEGPPAPASSGPPEEAA--RPAAPAAPAAPAAPAPAGAAAAPAE 638

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1994 VITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAilPKGPPASATATPAPTSPFPSATAGSMTYSLVAPKAQR 2073
Cdd:PRK07764  639 ASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPA--APPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADD 716

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2074 PSPKAPQkvkaaiasipvgsfesGTTGRTGPTPRQSLDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPL 2153
Cdd:PRK07764  717 PAAQPPQ----------------AAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPS 780

                         410
                  ....*....|....
gi 672035050 2154 PAEERPGTKGPETA 2167
Cdd:PRK07764  781 EEEEMAEDDAPSMD 794

HMG_box_2

pfam09011

HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate ...

1098-1173

7.62e-06

HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate re-modelling of chromatin-structure. Mammalian HMG-box proteins are of two types: those that are non-sequence-specific DNA-binding proteins with two HMG-box domains and a long highly acidic C-tail; and a diverse group of sequence-specific transcription factor-proteins with either a single HMG-box or up to six copies, and no acidic C-tail.

Pssm-ID: 430369 [Multi-domain] Cd Length: 72 Bit Score: 45.86 E-value: 7.62e-06

                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 672035050  1098 PNKRekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1173
Cdd:pfam09011    1 PNKP-----KRARNAYAFFVQEMIPEHKRQNPVIGFAEVSKLCSERWKNLSEEEKEKYEEMAKEDKNRYDREMGTY 71

PRK14959

DNA polymerase III subunits gamma and tau; Provisional

1947-2109

7.75e-06

DNA polymerase III subunits gamma and tau; Provisional

Pssm-ID: 184923 [Multi-domain] Cd Length: 624 Bit Score: 51.22 E-value: 7.75e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1947 SLGPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLG--PPSQAPPslvytv 2024
Cdd:PRK14959  370 SLRPSGGGASAPSGSAAEGP--ASGGAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPrvPWDDAPP------ 441

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2025 atstTPPAAAILPKGPPASATATPAPTSPFPSATAGSMTYSLVAPKAqrPSPKAPQKVKAAIASIPVGSFESGTTGRTGP 2104
Cdd:PRK14959  442 ----APPRSGIPPRPAPRMPEASPVPGAPDSVASASDAPPTLGDPSD--TAEHTPSGPRTWDGFLEFCQGRNGQGGRLAT 515


                  ....*
gi 672035050 2105 TPRQS 2109
Cdd:PRK14959  516 VLRQA 520

HMG-box_AtHMGB6-like_rpt2

cd22007

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

1107-1169

1.02e-05

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

Pssm-ID: 438823 [Multi-domain] Cd Length: 68 Bit Score: 45.32 E-value: 1.02e-05

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1169
Cdd:cd22007     2 KRPQSAYFLYANDRRAALKEENKNVKITEIAKMLGAEWKNLSDAKKKPYEEKAKKLKEAYLQE 64

HMG-box_UBF1_rpt4

cd22001

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

1104-1164

1.12e-05

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

Pssm-ID: 438817 [Multi-domain] Cd Length: 66 Bit Score: 44.98 E-value: 1.12e-05

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672035050 1104 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1164
Cdd:cd22001     1 EKPKRPISAMFIYSKEKRSKLKKKHPELSEQELTRLLAKKYNELPDKKKAKYKKKEALAKA 61

PHA03307

transcriptional regulator ICP4; Provisional

1759-2125

1.25e-05

transcriptional regulator ICP4; Provisional

Pssm-ID: 223039 [Multi-domain] Cd Length: 1352 Bit Score: 50.94 E-value: 1.25e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1759 PAPTTSIRFTLPPGTSTNGKVLAATAPTAGIPilqSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPSMSVRG 1838
Cdd:PHA03307   80 PANESRSTPTWSLSTLAPASPAREGSPTPPGP---SSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAG 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1839 GGAGQ-PLPLVSSPFSVPVQNGAQQPSKiiqltpvPVSTPSGLVPPLSPATMPGPTSQPqkvllPSSTRITYVQSAGGHT 1917
Cdd:PHA03307  157 ASPAAvASDAASSRQAALPLSSPEETAR-------APSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAP 224

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1918 LPLGTSSACSQTGTVTSYGPASSvALGFTSLGPSGPAFVQPLLSagqAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITA 1997
Cdd:PHA03307  225 GRSAADDAGASSSDSSSSESSGC-GWGPENECPLPRPAPITLPT---RIWEASGWNGPSSRPGPASSSSSPRERSPSPSP 300

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1998 FYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAILPKGPPASATATPAPTSPFPSATAGSMT---YSLVAPKAQRP 2074
Cdd:PHA03307  301 SSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRkrpRPSRAPSSPAA 380

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 672035050 2075 SP--KAPQKVKAAIASIPVGSFESGTTGRTGPTPRQSLDSGVAREPAAPESEL 2125
Cdd:PHA03307  381 SAgrPTRRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASGAFYARYPLL 433

Chi1

Chitinase [Carbohydrate transport and metabolism];

1873-2082

1.83e-05

Chitinase [Carbohydrate transport and metabolism];

Pssm-ID: 442692 [Multi-domain] Cd Length: 534 Bit Score: 50.14 E-value: 1.83e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1873 PVSTPSGLVPPLSPATMPGPTSQPQKVL-LPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLGPS 1951
Cdd:COG3469    11 TAGGASATAVTLLGAAATAASVTLTAATaTTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAAT 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1952 GPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPP 2031
Cdd:COG3469    91 STSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTT 170

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 672035050 2032 AAAILPKGPPASATATPAPTSPFPSATAGSMtyslvAPKAQRPSPKAPQKV 2082
Cdd:COG3469   171 TTTSASTTPSATTTATATTASGATTPSATTT-----ATTTGPPTPGLPKHV 216

HMG-box_NHP10-like

cd22016

high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone protein 10 (NHP10) ...

1092-1164

1.93e-05

high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone protein 10 (NHP10) and similar proteins; NHP10, also called high mobility group protein 2, is probably involved in transcription regulation via its interaction with the INO80 complex, a chromatin remodeling complex.

Pssm-ID: 438832 [Multi-domain] Cd Length: 79 Bit Score: 45.02 E-value: 1.93e-05

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1092 EKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQR----HPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1164
Cdd:cd22016     2 EKDPNAP--------KRPANAFFLFCQEQREKVREEykeeHQEIDHHDLTKALAQAWRNLDAEDKKPYYELYEKDKE 70

PHA03247

large tegument protein UL36; Provisional

1508-1894

2.91e-05

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 49.94 E-value: 2.91e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1508 PESVGSLEAPGSSVIAAPPSGGGNILQTLVLPPSKEDREGTRVPSAPAPSLAYGAPAAPlcrPAATMVTNVVRPVSSTPV 1587
Cdd:PHA03247 2631 PSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAAR---PTVGSLTSLADPPPPPPT 2707

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1588 PIASKPFPTSGRAEASSNDTVGARTEMGTGSRVPGGSPLGVSLVYSDKKSAAATSPAPHLVAGPLLGTVGKAPATVTNLL 1667
Cdd:PHA03247 2708 PEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPA 2787

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1668 VGTPGYGAPASPAVQFIAQgAPGSATPAGSGASAGSGPNGPVPlgilQPGALGKAGGITQVQYILPTLPQQLQVapapAP 1747
Cdd:PHA03247 2788 VASLSESRESLPSPWDPAD-PPAAVLAPAAALPPAASPAGPLP----PPTSAQPTAPPPPPGPPPPSLPLGGSV----AP 2858

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1748 APGTKAAAPSGPAPTTSIRFTLPPGTSTNGKVLAATAPTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLV 1827
Cdd:PHA03247 2859 GGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPR 2938

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1828 PLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVP-VSTPSGLVPPLSPATMPGPTS 1894
Cdd:PHA03247 2939 PQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPsREAPASSTPPLTGHSLSRVSS 3006

HMG-box_PMS1

cd21985

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

1106-1166

3.21e-05

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

Pssm-ID: 438801 [Multi-domain] Cd Length: 73 Bit Score: 44.07 E-value: 3.21e-05

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672035050 1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1166
Cdd:cd21985     2 IRKPMSASALFEQETRPQFLAENPKASLQDITLKIEERWKNLSEEEKKKYEEKAAKDLERY 62

PRK14950

DNA polymerase III subunits gamma and tau; Provisional

1961-2088

3.30e-05

DNA polymerase III subunits gamma and tau; Provisional

Pssm-ID: 237864 [Multi-domain] Cd Length: 585 Bit Score: 49.42 E-value: 3.30e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1961 SAGQAPL-LAPGQVGVSPVPSPQlppactaPGGPviTAFYPGSPAPTSAPLGPPSQAPPSlvytvATSTTPPAAAILPKG 2039
Cdd:PRK14950  345 SYGQLPLeLAVIEALLVPVPAPQ-------PAKP--TAAAPSPVRPTPAPSTRPKAAAAA-----NIPPKEPVRETATPP 410

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 672035050 2040 PPASATATPAPTSPFPSA--TAGSMTYSLVAPKAQRPSPKaPQKVKAAIAS 2088
Cdd:PRK14950  411 PVPPRPVAPPVPHTPESApkLTRAAIPVDEKPKYTPPAPP-KEEEKALIAD 460

HMG-box_AtHMGB1-like

cd22005

high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 1 ...

1108-1163

3.57e-05

high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 1 (HMGB1) and similar proteins; This subfamily contains a group of Arabidopsis thaliana HMGB family proteins, including HMGB1, 2, 3, 4, 5, 7, 12 and 14. They bind preferentially to double-stranded DNA. HMGB1 modulates general plant growth and stress tolerance and confers sensitivity to salt and genotoxic (methyl methanesulfonate, MMS) stresses. HMGB2 and HMGB5 confer sensitivity to salt and drought stresses. HMGB7 is required for karyogamy during female gametophyte development, when the two polar nuclei fuse to form the diploid central cell nucleus. Members of this subfamily contain only one HMG-box domain.

Pssm-ID: 438821 [Multi-domain] Cd Length: 60 Bit Score: 43.45 E-value: 3.57e-05

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 1163
Cdd:cd22005     2 RPPTAFFLFLADFRKTYKKKNPDKSVKAVGKAAGEKWKSMSDEEKAPYVEKAEKEK 57

Chi1

Chitinase [Carbohydrate transport and metabolism];

1835-2061

7.42e-05

Chitinase [Carbohydrate transport and metabolism];

Pssm-ID: 442692 [Multi-domain] Cd Length: 534 Bit Score: 48.21 E-value: 7.42e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1835 SVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMP-GPTSQPQKVLLPSSTRITYVQSA 1913
Cdd:COG3469     3 SVSTAASPTAGGASATAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGsGTGTTAASSTAATSSTTSTTATA 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1914 GGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSpvpspqlppACTAPGGP 1993
Cdd:COG3469    83 TAAAAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAG---------STTTTTTV 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1994 VITAFYPGSPAPTSAPLGPPSQAPPslvYTVATSTTPPAAAilpkGPPASATATPAPTSPFPSATAGS 2061
Cdd:COG3469   154 SGTETATGGTTTTSTTTTTTSASTT---PSATTTATATTAS----GATTPSATTTATTTGPPTPGLPK 214

dnaA

PRK14086

chromosomal replication initiator protein DnaA;

868-1043

1.07e-04

chromosomal replication initiator protein DnaA;

Pssm-ID: 237605 [Multi-domain] Cd Length: 617 Bit Score: 47.51 E-value: 1.07e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  868 VPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVLVPSSYP----SHPAPKKEVIMGRPGTvWtnvePRSVAVFPW 943
Cdd:PRK14086   93 GEPAPPPPHARRTSEPELPRPGRRPYEGYGGPRADDRPPGLPRQDqlptARPAYPAYQQRPEPGA-W----PRAADDYGW 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  944 HSlvPFLAPSQPDPSVQPSEAQQPASHPVASNQSKEPAESAA-------VAHEQPPGGTGGADPGRPPGATCPESPGPGP 1016
Cdd:PRK14086  168 QQ--QRLGFPPRAPYASPASYAPEQERDREPYDAGRPEYDQRrrdydhpRPDWDRPRRDRTDRPEPPPGAGHVHRGGPGP 245

                         170       180       190
                  ....*....|....*....|....*....|..
gi 672035050 1017 P-----LTLGGVDPGKSLPPTTEEEAPGPPGE 1043
Cdd:PRK14086  246 PerddaPVVPIRPSAPGPLAAQPAPAPGPGEP 277

HMG-box_HMGB_rpt1

cd21978

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

1107-1164

1.15e-04

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

Pssm-ID: 438794 [Multi-domain] Cd Length: 69 Bit Score: 42.29 E-value: 1.15e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQ--DNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1164
Cdd:cd21978     3 RGKMSSYAFFVQTCREEHKKKHPNEsvNFSEFSKKCSERWKTMSAKEKKKFEDMAKKDKA 62

PRK12323

DNA polymerase III subunit gamma/tau;

1914-2115

1.52e-04

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 47.18 E-value: 1.52e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1914 GGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGP 1993
Cdd:PRK12323  369 GGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAP 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1994 VITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAA-AILPKGPPASATATPAPTSPFP----SATAGSMTYSLVA 2068
Cdd:PRK12323  449 APAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAApAPADDDPPPWEELPPEFASPAPaqpdAAPAGWVAESIPD 528

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 672035050 2069 PKAQRPSPKAPQKVKAAIASiPVGSFESGTTGRTGPTPRQSLDSGVA 2115
Cdd:PRK12323  529 PATADPDDAFETLAPAPAAA-PAPRAAAATEPVVAPRPPRASASGLP 574

PHA03378

EBNA-3B; Provisional

1950-2116

2.32e-04

EBNA-3B; Provisional

Pssm-ID: 223065 [Multi-domain] Cd Length: 991 Bit Score: 46.60 E-value: 2.32e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1950 PSGPAFVQPLLSA---GQAPLLAPGqvgvsPVPSPQLPPACTAPGGPVITAFYPGSPAPTSA--PLGPPSQAPPSlvYTV 2024
Cdd:PHA03378  678 PTGANTMLPIQWApgtMQPPPRAPT-----PMRPPAAPPGRAQRPAAATGRARPPAAAPGRArpPAAAPGRARPP--AAA 750

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2025 ATSTTPPAAAILPKGPPASATATPAPTSPfPSATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPvgsfesGTTGRTGP 2104
Cdd:PHA03378  751 PGRARPPAAAPGRARPPAAAPGAPTPQPP-PQAPPAPQQRPRGAPTPQPPPQAGPTSMQLMPRAAP------GQQGPTKQ 823

                         170
                  ....*....|..
gi 672035050 2105 TPRQSLDSGVAR 2116
Cdd:PHA03378  824 ILRQLLTGGVKR 835

PRK12323

DNA polymerase III subunit gamma/tau;

847-1051

2.99e-04

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 46.41 E-value: 2.99e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  847 PGVASGKPSLPPPLPAPVPITVPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVLVPSSYPSHPAPKKEVIMGRP 926
Cdd:PRK12323  365 PGQSGGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGP 444

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  927 GTvwtnveprsvAVFPWHSLVPFLAPSQPDPSVQPSEAqqPASHPVASNQSKEPAESAAVAHEQPPGGTGGADPGRPPGA 1006
Cdd:PRK12323  445 GG----------APAPAPAPAAAPAAAARPAAAGPRPV--AAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPA 512

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 672035050 1007 tcPESPGPGPPLTLGGVDPGKSLPPT---TEEEAPGPPGEPRLDSETE 1051
Cdd:PRK12323  513 --QPDAAPAGWVAESIPDPATADPDDafeTLAPAPAAAPAPRAAAATE 558

Herpes_BLLF1

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...

1921-2109

3.08e-04

Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 46.45 E-value: 3.08e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1921 GTSSACSQTGTVTSYGPASSV-ALGFTSLGPSGPAFVQPLLSAGQAP--LLAPGQVG--VSPVPSPQLPPACTAPGGPvi 1995
Cdd:pfam05109  409 ATNATTTTHKVIFSKAPESTTtSPTLNTTGFAAPNTTTGLPSSTHVPtnLTAPASTGptVSTADVTSPTPAGTTSGAS-- 486

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1996 tafyPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAilpkgPPASATATPAPTSPFPSATAGSMTYSLVAPKAQRPS 2075
Cdd:pfam05109  487 ----PVTPSPSPRDNGTESKAPDMTSPTSAVTTPTPNAT-----SPTPAVTTPTPNATSPTLGKTSPTSAVTTPTPNATS 557

                          170       180       190
                   ....*....|....*....|....*....|....
gi 672035050  2076 PKAPQKVKAAIASIPVGSFESGTTGRTGPTPRQS 2109
Cdd:pfam05109  558 PTPAVTTPTPNATIPTLGKTSPTSAVTTPTPNAT 591

HMG-box_BHMG1

cd21977

high mobility group (HMG)-box found in basic helix-loop-helix and HMG box domain-containing ...

1110-1166

3.11e-04

high mobility group (HMG)-box found in basic helix-loop-helix and HMG box domain-containing protein 1 (BHMG1) and similar proteins; BHMG1 is an uncharacterized HMG-box containing protein that contains a degenerate basic motif not likely to bind DNA.

Pssm-ID: 438793 [Multi-domain] Cd Length: 66 Bit Score: 41.15 E-value: 3.11e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1110 MNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1166
Cdd:cd21977     5 VNGFIMFCRLNRKNYIDKHPGLASTELTKELGQLWRELSAEEKKPYCVRARELSQLH 61

Chi1

Chitinase [Carbohydrate transport and metabolism];

1773-1984

3.36e-04

Chitinase [Carbohydrate transport and metabolism];

Pssm-ID: 442692 [Multi-domain] Cd Length: 534 Bit Score: 45.90 E-value: 3.36e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1773 TSTNGKVLAATAPTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPF 1852
Cdd:COG3469     2 SSVSTAASPTAGGASATAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTAT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1853 SVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYVQSAGGHTLPLGTSSACSQTGTV 1932
Cdd:COG3469    82 ATAAAAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATG 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1933 TSYGPASSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLP 1984
Cdd:COG3469   162 GTTTTSTTTTTTSASTTPSATTTATATTASGATTPSATTTATTTGPPTPGLP 213

PHA03247

large tegument protein UL36; Provisional

1856-2242

4.05e-04

large tegument protein UL36; Provisional

Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 46.08 E-value: 4.05e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1856 VQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYVQSAGGHTLPLGTSSAcsqtgtvtSY 1935
Cdd:PHA03247 2491 AAGAAPDPGGGGPPDPDAPPAPSRLAPAILPDEPVGEPVHPRMLTWIRGLEELASDDAGDPPPPLPPAAP--------PA 2562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1936 GPASSVALGFTSLGPSGPAF--------VQPLLSAGQAPLLAPGQVGVSPVPSPqLPPACTAPGGPVitafYPGSPAPTS 2007
Cdd:PHA03247 2563 APDRSVPPPRPAPRPSEPAVtsrarrpdAPPQSARPRAPVDDRGDPRGPAPPSP-LPPDTHAPDPPP----PSPSPAANE 2637

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2008 APLGPPSQAPPSLVYTVATS---TTPPAAAILPKGPPASATATPAPTSPFPSATAGSMTySLVAPKAQRPSPKAPQKvkA 2084
Cdd:PHA03247 2638 PDPHPPPTVPPPERPRDDPApgrVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLT-SLADPPPPPPTPEPAPH--A 2714

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2085 AIASIPVGSFESGTTGRTGPTPRQSLDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGP 2164
Cdd:PHA03247 2715 LVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSES 2794

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2165 ETASKFPSSSSDWRVPGLGLESR---------GEPPTPPSPAPAPATGPSGSSSGSSEGSSGRAAGDTPERKEVTSSGKK 2235
Cdd:PHA03247 2795 RESLPSPWDPADPPAAVLAPAAAlppaaspagPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAK 2874


                  ....*..
gi 672035050 2236 MKVRPPP 2242
Cdd:PHA03247 2875 PAAPARP 2881

PRK14951

DNA polymerase III subunits gamma and tau; Provisional

1953-2090

4.26e-04

DNA polymerase III subunits gamma and tau; Provisional

Pssm-ID: 237865 [Multi-domain] Cd Length: 618 Bit Score: 45.48 E-value: 4.26e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1953 PAFVQPLLSAGQAPLLAPGQVGvSPVPSPQLPPActAPGGPVITAfypgsPAPTSAPLGPPSQAPPslvytvATSTTPPA 2032
Cdd:PRK14951  366 PAAAAEAAAPAEKKTPARPEAA-APAAAPVAQAA--AAPAPAAAP-----AAAASAPAAPPAAAPP------APVAAPAA 431

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 672035050 2033 AAILPKGPPASATATPAPTSPFPSATAGSMTYSLVAP-KAQRPSPKAPQKVKAAIASIP 2090
Cdd:PRK14951  432 AAPAAAPAAAPAAVALAPAPPAQAAPETVAIPVRVAPePAVASAAPAPAAAPAAARLTP 490

PRK07003

DNA polymerase III subunit gamma/tau;

1875-2059

5.03e-04

DNA polymerase III subunit gamma/tau;

Pssm-ID: 235906 [Multi-domain] Cd Length: 830 Bit Score: 45.61 E-value: 5.03e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1875 STPSGLVPPLSPATMPGPtsQPQKVLLPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLGPSGPA 1954
Cdd:PRK07003  366 GAPGGGVPARVAGAVPAP--GARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAA 443

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1955 fvqpllsAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAA 2034
Cdd:PRK07003  444 -------DGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAA 516

                         170       180
                  ....*....|....*....|....*
gi 672035050 2035 ILPKGPPASATATPAPTSPFPSATA 2059
Cdd:PRK07003  517 SREDAPAAAAPPAPEARPPTPAAAA 541

PHA03307

transcriptional regulator ICP4; Provisional

1942-2324

5.16e-04

transcriptional regulator ICP4; Provisional

Pssm-ID: 223039 [Multi-domain] Cd Length: 1352 Bit Score: 45.55 E-value: 5.16e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1942 ALGFTSLGPSGPAFVQPLLSAGQAPLLAP-----GQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQA 2016
Cdd:PHA03307    4 APDLYDLIEAAAEGGEFFPRPPATPGDAAddllsGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGPGTEAPANE 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2017 PPSLVYTVATSTTPPAAAILPKGPPASATATPAPTSPFPSATAGSMTYSLVAPKAQR-PSPKAPQKVKAAIASIPVGSFE 2095
Cdd:PHA03307   84 SRSTPTWSLSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPvGSPGPPPAASPPAAGASPAAVA 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2096 SGTTGRTGPTPRQSLDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSS 2175
Cdd:PHA03307  164 SDAASSRQAALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADDAGASSSDSSSSE 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2176 DWRVPGLGLESRGEPPTPPSPAPAPATGPSGSSSGSSEGSSGRAAGDTPERKEVTSSGKKmkvRPPPLKKTFDSVDNRVL 2255
Cdd:PHA03307  244 SSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSP---GSGPAPSSPRASSSSSS 320

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672035050 2256 S-EVDFEERFAELPEFRPEEVLPSPTLQSLATSPR---AILGSYRKKRKNSTDLDSAPedPTSPKRKMRRRSS 2324
Cdd:PHA03307  321 SrESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRpppPADPSSPRKRPRPSRAPSSP--AASAGRPTRRRAR 391

HMG-box_SMARCE1

cd21983

high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent ...

1108-1157

5.19e-04

high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 (SMARCE1) and similar proteins; SMARCE1, also called BRG1-associated factor 57 (BAF57), is a ubiquitously expressed protein involved in transcriptional activation and repression of select genes by chromatin remodeling. It is a component of SWI/SNF chromatin remodeling complexes that carry out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner. SMARCE1 has a single HMG domain that displays non-specific DNA-binding characteristics. It also contains a kinesin-like coiled-coil (KLCC) domain.

Pssm-ID: 438799 [Multi-domain] Cd Length: 73 Bit Score: 40.74 E-value: 5.19e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 1157
Cdd:cd21983     7 KPLMPYMRYSRKVWDQVKASNPDLKLWEIGKIIGQMWRELSDEEKQEYIE 56

HMG-box_PB1

cd21984

high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, ...

1107-1164

6.04e-04

high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, also called BRG1-associated factor 180 (BAF180), or polybromo-1D, is a subunit of the PBAF (polybromo/Brg1-associated factor) chromatin-remodeling complex required for kinetochore localization during mitosis and the transcription of estrogen-responsive genes. It is involved in transcriptional activation and repression of select genes by chromatin remodeling. It acts as a negative regulator of cell proliferation.

Pssm-ID: 438800 [Multi-domain] Cd Length: 60 Bit Score: 39.92 E-value: 6.04e-04

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1164
Cdd:cd21984     1 KRNPSGYILFSSEVRKSIKAENPDYSFGEISRLVGTEWRNLPAEKKAEYEERAQKQAE 58

PRK07764

DNA polymerase III subunits gamma and tau; Validated

840-1050

7.95e-04

DNA polymerase III subunits gamma and tau; Validated

Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 44.98 E-value: 7.95e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  840 CRETPVPPGVASGKPSLPPPLPAPVPITVPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVLVPSSYPSHPAPKK 919
Cdd:PRK07764  586 AVVGPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDG 665

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  920 EVIMGRPGT--VWTNVEPRSVAVFPWHSLVPFLAPSQPDPSVQPSEAQQPASHPVASNQSKEPAESAAVAHEQ------- 990
Cdd:PRK07764  666 GDGWPAKAGgaAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADDPvplppep 745

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050  991 --PPGGTGGADPGRPPGATCPESPGPGPPLTLGGVDPgkslPPTTEEEAPGPPGEPRLDSET 1050
Cdd:PRK07764  746 ddPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPSEE----EEMAEDDAPSMDDEDRRDAEE 803

SepH

NF040712

septation protein SepH; Septation protein H (SepH) was firstly characterized in Streptomyces ...

1951-2090

1.19e-03

Pssm-ID: 468676 [Multi-domain] Cd Length: 346 Bit Score: 43.60 E-value: 1.19e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1951 SGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSA--PLGPPSQAPPSLVYTVATST 2028
Cdd:NF040712  188 IDPDFGRPLRPLATVPRLAREPADARPEEVEPAPAAEGAPATDSDPAEAGTPDDLASArrRRAGVEQPEDEPVGPGAAPA 267

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 2029 TPPAAAILPKGPP-----ASATATPAPTSPFPSATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIP 2090
Cdd:NF040712  268 AEPDEATRDAGEPpapgaAETPEAAEPPAPAPAAPAAPAAPEAEEPARPEPPPAPKPKRRRRRASVP 334

PRK14971

DNA polymerase III subunit gamma/tau;

1961-2094

1.22e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237874 [Multi-domain] Cd Length: 614 Bit Score: 44.00 E-value: 1.22e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1961 SAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPVITAFYPGSPAPTSAPlgPPSQAPPSL-VYTVATSTTPPAAAILPKG 2039
Cdd:PRK14971  370 SGGRGPKQHIKPVFTQPAAAPQPSAAAAASPSPSQSSAAAQPSAPQSAT--QPAGTPPTVsVDPPAAVPVNPPSTAPQAV 447

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 672035050 2040 PPASAtatpAPTSPFPSATAGSMTYSLVAPKaQRPSPKAPQKVKAAIASIPVGSF 2094
Cdd:PRK14971  448 RPAQF----KEEKKIPVSKVSSLGPSTLRPI-QEKAEQATGNIKEAPTGTQKEIF 497

HMG-box_AtSSRP1

cd22013

high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and ...

1100-1174

1.37e-03

high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and similar proteins; SSRP1, also called facilitates chromatin transcription complex subunit SSRP1, high mobility group B protein 8, nucleosome/chromatin assembly factor group D 08 (or D 8), protein NUCLEAR FUSION DEFECTIVE 8, or recombination signal sequence recognition protein 1, is a component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication, and DNA repair. SSRP1 may bind specifically to double-stranded DNA. It is required for karyogamy during female gametophyte development, when the two polar nuclei fuse to form the diploid central cell nucleus. SSRP1 contains only one HMG-box domain.

Pssm-ID: 438829 [Multi-domain] Cd Length: 80 Bit Score: 39.84 E-value: 1.37e-03

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050 1100 KREKD--HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1174
Cdd:cd22013     1 KKKKDpnAPKRALSGFMFFSLMERENLKKEKPGISFGEVGKVLGEKWKNMSADDKAPYEAKAQVDKERYKKEMSGYK 77

PRK07994

DNA polymerase III subunits gamma and tau; Validated

1953-2084

1.54e-03

DNA polymerase III subunits gamma and tau; Validated

Pssm-ID: 236138 [Multi-domain] Cd Length: 647 Bit Score: 43.70 E-value: 1.54e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1953 PAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTAPGGPvitafyPGSPAPTSAPLGPPSQAPPSLVytVATSTTPPA 2032
Cdd:PRK07994  361 PAAPLPEPEVPPQSAAPAASAQATAAPTAAVAPPQAPAVPP------PPASAPQQAPAVPLPETTSQLL--AARQQLQRA 432

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 672035050 2033 AAILPkgPPASATATPAPTSPFPSATAgsmtysLVAPKAQRPSPKAPQKVKA 2084
Cdd:PRK07994  433 QGATK--AKKSEPAAASRARPVNSALE------RLASVRPAPSALEKAPAKK 476

HMG-box_NSD2

cd21991

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

1106-1155

1.65e-03

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

Pssm-ID: 438807 [Multi-domain] Cd Length: 62 Bit Score: 38.83 E-value: 1.65e-03

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 672035050 1106 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKY 1155
Cdd:cd21991     2 KKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARY 51

Atrophin-1

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...

1729-2055

1.68e-03

Pssm-ID: 460830 [Multi-domain] Cd Length: 991 Bit Score: 43.99 E-value: 1.68e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1729 QYILPTLPQQLQVAPAPAPAPGTKAAAPSG---PAPTTSIRFTLPPGTSTNGKVLAATAPTAG-IPILQSVPSAPPPKAQ 1804
Cdd:pfam03154  164 QQILQTQPPVLQAQSGAASPPSPPPPGTTQaatAGPTPSAPSVPPQGSPATSQPPNQTQSTAApHTLIQQTPTLHPQRLP 243

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1805 SV-SPVQ-----ATPSGGSAQLLPGKVL-VPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQ-----------PSKI 1866
Cdd:pfam03154  244 SPhPPLQpmtqpPPPSQVSPQPLPQPSLhGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQvppgpspaapgQSQQ 323

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1867 IQLTPVPVSTPSGLVPPLSPATMPGPTSQPQkVLLPSSTRITYVQSAGGHTLPLGTSSAcsQTGTVTSYGPASSVALGFT 1946
Cdd:pfam03154  324 RIHTPPSQSQLQSQQPPREQPLPPAPLSMPH-IKPPPTTPIPQLPNPQSHKHPPHLSGP--SPFQMNSNLPPPPALKPLS 400

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1947 SLGPSGPAFVQP----LLSAGQAPLLAPGQVGV------SPVPSPQLPPACTAPGGPVIT-----AFYPGSPAPTSAPLG 2011
Cdd:pfam03154  401 SLSTHHPPSAHPpplqLMPQSQQLPPPPAQPPVltqsqsLPPPAASHPPTSGLHQVPSQSpfpqhPFVPGGPPPITPPSG 480

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 672035050  2012 P-------------PSQAPPSLVYTVATSTTPPAAAILPKGPPASATATPAPTSPFP 2055
Cdd:pfam03154  481 PptstssampgiqpPSSASVSSSGPVPAAVSCPLPPVQIKEEALDEAEEPESPPPPP 537

PRK12323

DNA polymerase III subunit gamma/tau;

1997-2167

1.81e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 43.71 E-value: 1.81e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1997 AFYP----GSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAILPKGPPASATATPAPT------SPFPSATAGSMTYSL 2066
Cdd:PRK12323  362 AFRPgqsgGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAaaparrSPAPEALAAARQASA 441

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2067 VAPKAQRPSPKAPQKVKAAIASIPVGSfesgttgrTGPTPRQSLDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTAR 2146
Cdd:PRK12323  442 RGPGGAPAPAPAPAAAPAAAARPAAAG--------PRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQ 513

                         170       180
                  ....*....|....*....|....
gi 672035050 2147 SSPPPPLPAEE---RPGTKGPETA 2167
Cdd:PRK12323  514 PDAAPAGWVAEsipDPATADPDDA 537

HMG-box_HMG20B

cd22018

high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar ...

1107-1168

1.91e-03

high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar proteins; HMG20B, also called SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related, SMARCE1-related protein (SMARCE1R), BRCA2-associated factor 35 (BRAF35), HMG box-containing protein 20B, HMG domain-containing protein 2 (HMGXB2), HMG domain-containing protein HMGX2, Sox-like transcriptional factor, or structural DNA-binding protein BRAF35, is a DNA binding factor that acts as a repressor of erythroid differentiation. It is required for correct progression through the G2 phase of the cell cycle and entry into mitosis. It is also required for RCOR1/CoREST mediated repression of neuronal specific gene promoters. HMG20B is a core subunit of the Lys-specific demethylase 1/REST co-repressor 1 (LSD1-CoREST) histone demethylase complex.

Pssm-ID: 438834 [Multi-domain] Cd Length: 85 Bit Score: 39.57 E-value: 1.91e-03

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1168
Cdd:cd22018     3 KAPVTGYVRFLNERREQIRTQHPDLPFPEITKMLGAEWSKLQPHEKQRYLDEAERDKQQYMK 64

Herpes_BLLF1

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...

1757-2052

2.04e-03

Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 43.75 E-value: 2.04e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1757 SGPAPTtsirftlPPGTSTNGKVLAATAPTAGIpilqsvpSAPPPKAQSVSPVQATPSGGSAQLLPGKVlVPLAApsMSV 1836
Cdd:pfam05109  488 VTPSPS-------PRDNGTESKAPDMTSPTSAV-------TTPTPNATSPTPAVTTPTPNATSPTLGKT-SPTSA--VTT 550

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1837 RGGGAGQPLPLVSSPF---SVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPA---TMPGPTSQPqkVLLPSSTRITYV 1910
Cdd:pfam05109  551 PTPNATSPTPAVTTPTpnaTIPTLGKTSPTSAVTTPTPNATSPTVGETSPQANTtnhTLGGTSSTP--VVTSPPKNATSA 628

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1911 QSAGGHTLPLGTSSACSQTGTVTSYGPASSVALGFTSLgpsgpafvQPLLSAGQaPLLAPGQVGVSPVPSPQLPPACTAP 1990
Cdd:pfam05109  629 VTTGQHNITSSSTSSMSLRPSSISETLSPSTSDNSTSH--------MPLLTSAH-PTGGENITQVTPASTSTHHVSTSSP 699

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050  1991 ggpvitAFYPGSPAPTSAPLGPPSQAPPSLVYTvaTSTTPPAAAILPKGPPASATATPAPTS 2052
Cdd:pfam05109  700 ------APRPGTTSQASGPGNSSTSTKPGEVNV--TKGTPPKNATSPQAPSGQKTAVPTVTS 753

PRK14971

DNA polymerase III subunit gamma/tau;

1950-2056

2.25e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 237874 [Multi-domain] Cd Length: 614 Bit Score: 43.23 E-value: 2.25e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1950 PSGPAFVQP----LLSAGQAPLLAPGQVGVSPvPSPQLPPACTAPGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVY--- 2022
Cdd:PRK14971  378 HIKPVFTQPaaapQPSAAAAASPSPSQSSAAA-QPSAPQSATQPAGTPPTVSVDPPAAVPVNPPSTAPQAVRPAQFKeek 456

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 672035050 2023 TVATSTTPPAAAIL--PKGPPASATATPAPTSPFPS 2056
Cdd:PRK14971  457 KIPVSKVSSLGPSTlrPIQEKAEQATGNIKEAPTGT 492

DUF5585

pfam17823

Family of unknown function (DUF5585); This is a family of unknown function found in chordata.

1760-2111

2.39e-03

Family of unknown function (DUF5585); This is a family of unknown function found in chordata.

Pssm-ID: 465521 [Multi-domain] Cd Length: 506 Bit Score: 43.02 E-value: 2.39e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1760 APTTSIRFTLP---PGTSTNGKVLAATAPTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPsmsv 1836
Cdd:pfam17823  117 AAASSSPSSAAqslPAAIAALPSEAFSAPRAAACRANASAAPRAAIAAASAPHAASPAPRTAASSTTAASSTTAAS---- 192

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1837 rgggagqplplvsspfSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPqkVLLPSSTRITYVQSAGGH 1916
Cdd:pfam17823  193 ----------------SAPTTAASSAPATLTPARGISTAATATGHPAAGTALAAVGNSSP--AAGTVTAAVGTVTPAALA 254

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1917 TLPLGTSSACSQTGTVTSYGPASsvalgfTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQlpPACTAPGGPVit 1996
Cdd:pfam17823  255 TLAAAAGTVASAAGTINMGDPHA------RRLSPAKHMPSDTMARNPAAPMGAQAQGPIIQVSTDQ--PVHNTAGEPT-- 324

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1997 afyPGSPAPTSAPLGPPSQAPPSLvyTVATSTTPPAaailpKGPPASATATPaPTSPFPSATAGSMTyslvapkaQRPSP 2076
Cdd:pfam17823  325 ---PSPSNTTLEPNTPKSVASTNL--AVVTTTKAQA-----KEPSASPVPVL-HTSMIPEVEATSPT--------TQPSP 385

                          330       340       350
                   ....*....|....*....|....*....|....*....
gi 672035050  2077 KAPQKVKAA----IASIPVGSFESGTTGRTGPTPRQSLD 2111
Cdd:pfam17823  386 LLPTQGAAGpgilLAPEQVATEATAGTASAGPTPRSSGD 424

kgd

PRK12270

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...

1996-2089

2.46e-03

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;

Pssm-ID: 237030 [Multi-domain] Cd Length: 1228 Bit Score: 43.34 E-value: 2.46e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1996 TAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAAILPKGPPASATATPAPTSPFPSATAGSMTYSLVAPKAQRPS 2075
Cdd:PRK12270   34 ADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAAAAAAAAPAAPPAAAAAAAPAAAAV 113

                          90
                  ....*....|....
gi 672035050 2076 PKAPQKVKAAIASI 2089
Cdd:PRK12270  114 EDEVTPLRGAAAAV 127

HMG-box_CMB1-like

cd22014

high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 ...

1108-1169

2.65e-03

high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 and similar proteins; Cmb1 binds to cytosines in base mismatches and opposite chemically altered guanines. It contains only one HMG-box domain.

Pssm-ID: 438830 [Multi-domain] Cd Length: 62 Bit Score: 38.12 E-value: 2.65e-03

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672035050 1108 RPMNAFMIFSKRHRALVHQRHPNQDNrtvSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1169
Cdd:cd22014     3 RPPSPFLLFMEEFRRNEDNGKNLVEL---SRIAAEAWKNMSEDEKQPYIDRAKELLEEYKKQ 61

HMG-box_HMGXB4

cd21982

high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar ...

1107-1153

2.72e-03

high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar proteins; HMGXB4, also called HMG box-containing protein 4, high mobility group protein 2-like 1 (HMG2L1), or protein HMGBCG, is a non-histone chromosomal protein that negatively regulates Wnt/beta-catenin signaling during development. It plays a role in the hematopoietic system.

Pssm-ID: 438798 [Multi-domain] Cd Length: 61 Bit Score: 38.41 E-value: 2.72e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 672035050 1107 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQ 1153
Cdd:cd21982     2 KKNMSAYQVFCKEYRVSIVAEHPGIDFGELSKKLAEVWKQLPEKDKL 48

HMG-box_UBF1_rpt1-like

cd21998

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

1104-1172

2.99e-03

first high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar proteins; UBF1, also called UBTF, nucleolar transcription factor 1, or auto-antigen NOR-90, is a nucleolar transcription factor that recognizes the ribosomal RNA gene promoter and activates transcription mediated by RNA polymerase I through cooperative interactions with the transcription factor SL1/TIF-IB complex. It binds specifically to the upstream control element. UBF1 contains six HMG-box domains. This model corresponds to the first one. This model also includes the first HMG-box domain of upstream-binding factor 1-like protein 1 (UBTFL1), which contains two HMG-box domains.

Pssm-ID: 438814 [Multi-domain] Cd Length: 77 Bit Score: 38.46 E-value: 2.99e-03

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 672035050 1104 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD------LAFQVKEAHFKA-HPD 1172
Cdd:cd21998     2 DFPKKPLTPYFRFFMEKRAKYAKKHPEMSNLELTKILSKKYKELPEKKKQKYIQdyekekEEYEQKMARFREeHPD 77

Atrophin-1

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...

752-1044

3.95e-03

Pssm-ID: 460830 [Multi-domain] Cd Length: 991 Bit Score: 42.83 E-value: 3.95e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   752 TPTPSTPAGFRAVSPAVPFSRSRQPSPLLLLPPPAGLTSDPGPSVRRVPAvqrdspvivrNPDVPLPSKFPGEVGAAGEA 831
Cdd:pfam03154  262 SPQPLPQPSLHGQMPPMPHSLQTGPSHMQHPVPPQPFPLTPQSSQSQVPP----------GPSPAAPGQSQQRIHTPPSQ 331

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   832 RAGGPGRGCRETPVPPGVASgkpslpPPLPAPVPITVPPAAPTAVAQPMPTLGLASSPFQPVAFHPSPAALLPVlvpSSY 911
Cdd:pfam03154  332 SQLQSQQPPREQPLPPAPLS------MPHIKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQMNSNLPPPPALKPL---SSL 402

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050   912 PSHPAPKkevimgrpgtvwtnveprsvAVFPWHSLVPFLAPSQPDPsVQPSEAQQPASHPVASNQSKEPAESAAVAhEQP 991
Cdd:pfam03154  403 STHHPPS--------------------AHPPPLQLMPQSQQLPPPP-AQPPVLTQSQSLPPPAASHPPTSGLHQVP-SQS 460

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|...
gi 672035050   992 PGGTGGADPGRPPGATCPESPGPGPPLTLGGVDPGKSLPPTTEEEAPGPPGEP 1044
Cdd:pfam03154  461 PFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCP 513

PRK07003

DNA polymerase III subunit gamma/tau;

1949-2123

6.04e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 235906 [Multi-domain] Cd Length: 830 Bit Score: 42.14 E-value: 6.04e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1949 GPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTAPGGPVITAF-YPGSPAPTSAPLGPPSQAPPSLVYTVATS 2027
Cdd:PRK07003  364 GGGAPGGGVPARVAGAVP--APGARAAAAVGASAVPAVTAVTGAAGAALApKAAAAAAATRAEAPPAAPAPPATADRGDD 441

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 2028 TTP-PAAAILPKGPPASATATPAPTSPFP-SATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFESgttgrtgPT 2105
Cdd:PRK07003  442 AADgDAPVPAKANARASADSRCDERDAQPpADSGSASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARA-------PA 514

                         170
                  ....*....|....*...
gi 672035050 2106 PRQSLDSGVAREPAAPES 2123
Cdd:PRK07003  515 AASREDAPAAAAPPAPEA 532

PRK07003

DNA polymerase III subunit gamma/tau;

1552-1694

6.80e-03

DNA polymerase III subunit gamma/tau;

Pssm-ID: 235906 [Multi-domain] Cd Length: 830 Bit Score: 41.76 E-value: 6.80e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1552 SAPAPSLAYGAPAAPLCRPAATMVTNVVRPVSSTPVPIASKPFPTSGRAEASSNDTVGARTEMGTGSRVPGGSPLGVSLV 1631
Cdd:PRK07003  383 PGARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSR 462

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672035050 1632 YSDKKSAAATSPAPHLVAGPllgtvgKAPATVTNllvgtpgygAPASPAVQFIAQGAPGSATP 1694
Cdd:PRK07003  463 CDERDAQPPADSGSASAPAS------DAPPDAAF---------EPAPRAAAPSAATPAAVPDA 510

PRK14951

DNA polymerase III subunits gamma and tau; Provisional

1930-2058

6.98e-03

DNA polymerase III subunits gamma and tau; Provisional

Pssm-ID: 237865 [Multi-domain] Cd Length: 618 Bit Score: 41.62 E-value: 6.98e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050 1930 GTVTSYGPASSVALGFTSLGPSGPAfVQPLLSAGQAPLLAPGQVGVSPVPSP-QLPPACTAPGGPVI-TAFYPGSPAPTS 2007
Cdd:PRK14951  368 AAAEAAAPAEKKTPARPEAAAPAAA-PVAQAAAAPAPAAAPAAAASAPAAPPaAAPPAPVAAPAAAApAAAPAAAPAAVA 446

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 672035050 2008 APLGPPSQAPPSLVY---TVATSTTPPAAAILPKGPPASATATPAPTSPFPSAT 2058
Cdd:PRK14951  447 LAPAPPAQAAPETVAipvRVAPEPAVASAAPAPAAAPAAARLTPTEEGDVWHAT 500

Herpes_BLLF1

Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ...

1870-2240

7.57e-03

Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 41.83 E-value: 7.57e-03

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1870 TPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYvqsagghtlplgtssacsQTGTVTSYGPASSVAlGFTSLG 1949
Cdd:pfam05109  429 TTSPTLNTTGFAAPNTTTGLPSSTHVPTNLTAPASTGPTV------------------STADVTSPTPAGTTS-GASPVT 489

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  1950 PSgPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLP-PACTAPGgPVITAFYPGSPAPTSAPLGPpsqAPPSLVYTVATST 2028
Cdd:pfam05109  490 PS-PSPRDNGTESKAPDMTSPTSAVTTPTPNATSPtPAVTTPT-PNATSPTLGKTSPTSAVTTP---TPNATSPTPAVTT 564

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  2029 TPPAAAI--LPKGPPASATATPAPTSPFPS----ATAGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRT 2102
Cdd:pfam05109  565 PTPNATIptLGKTSPTSAVTTPTPNATSPTvgetSPQANTTNHTLGGTSSTPVVTSPPKNATSAVTTGQHNITSSSTSSM 644

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672035050  2103 GPTPRQ--------SLDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPplpaeeRPGTKGPETAskfPSSS 2174
Cdd:pfam05109  645 SLRPSSisetlspsTSDNSTSHMPLLTSAHPTGGENITQVTPASTSTHHVSTSSPAP------RPGTTSQASG---PGNS 715

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 672035050  2175 SDWRVPGLGLESRGeppTPPSPAPAPATGPSGSSSGSSEGSSGRAAGDTPERKEVTSSGKKMKVRP 2240
Cdd:pfam05109  716 STSTKPGEVNVTKG---TPPKNATSPQAPSGQKTAVPTVTSTGGKANSTTGGKHTTGHGARTSTEP 778

Atrophin-1