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Conserved domains on  [gi|768007589|ref|XP_011524966|]
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protein capicua homolog isoform X4 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 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 ...
 1108-1185 2.23e-59

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a transcriptional repressor which plays a role in the development of the central nervous system (CNS). In concert with ATXN1 and ATXN1L, CIC is involved in brain development.


:

Pssm-ID: 438806 [Multi-domain]  Cd Length: 78  Bit Score: 198.45  E-value: 2.23e-59
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1185
Cdd:cd21990     1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
DUF4819 pfam16090
Domain of unknown function (DUF4819); This presumed domain is functionally uncharacterized. ...
 252-346 1.31e-24

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: 99.68  E-value: 1.31e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589   252 DVVLDATPPPGALVVGTAVCTCV----EPGVAAYREGVVVEVATKPAAYKVRLSPGPSSqpglpgslpqppqplhrepEE 327
Cdd:pfam16090    1 DVILDASPSLSDVAVGTRVCVRLdpglEGGENVYREGVVVEVNNKPVRYVVKVSGGDEA-------------------KG 61

                           90
                   ....*....|....*....
gi 768007589   328 AVWVARSSLRLLRPPWEPE 346
Cdd:pfam16090   62 GVWVKRADLRLLRPPWWDE 80
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 1765-2183 1.44e-09

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 64.19  E-value: 1.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1765 PAPTTSIRFTLPPGTSTngkvlaATAPTPGIPILQSVPSAPPPKAQSVSPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRG 1844
Cdd:PHA03247 2627 PPPSPSPAANEPDPHPP------PTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLAD 2700

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1845 GGAGQPLPLVSPPFSVPVQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTRITYVQSAGGHAL 1924
Cdd:PHA03247 2701 PPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPP 2780

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1925 PLGTSPASSQAGTVTSYGPTssvalgftslgPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQ--LPPACAAPGGPVITA 2002
Cdd:PHA03247 2781 RRLTRPAVASLSESRESLPS-----------PWDPADPPAAVLAPAAALPPAASPAGPLPPPTsaQPTAPPPPPGPPPPS 2849

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2003 F-YSGSPAPTSSAPLAQPSQAPPSlvyTVATSTTPPAATIlpkgppapatatpapTSPFPSATgsmTYSLVAPKAQRPSP 2081
Cdd:PHA03247 2850 LpLGGSVAPGGDVRRRPPSRSPAA---KPAAPARPPVRRL---------------ARPAVSRS---TESFALPPDQPERP 2908

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2082 KAPQkvkaaIASIPVGSFEAGASGRPGPAPRQPLEPGPVREP---TAPESELEGQPTPPAPPPLPETWTPTARSSPPLPP 2158
Cdd:PHA03247 2909 PQPQ-----APPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPttdPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPA 2983

                         410       420
                  ....*....|....*....|....*
gi 768007589 2159 PAEErTSAKGPETMASKFPSSSSDW 2183
Cdd:PHA03247 2984 PSRE-APASSTPPLTGHSLSRVSSW 3007
dnaA super family cl42516
chromosomal replication initiator protein DnaA;
871-1046 3.85e-04

chromosomal replication initiator protein DnaA;


The actual alignment was detected with superfamily member PRK14086:

Pssm-ID: 455861 [Multi-domain]  Cd Length: 617  Bit Score: 45.97  E-value: 3.85e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  871 VPPAAPTAVAQPMPAFGLASSPFQPVAFHPSPAALLPVLVPSSY----TSHPAPKKEVIMGRPGTvWtnvePRSVAVFPW 946
Cdd:PRK14086   93 GEPAPPPPHARRTSEPELPRPGRRPYEGYGGPRADDRPPGLPRQdqlpTARPAYPAYQQRPEPGA-W----PRAADDYGW 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  947 HSlvPFLAPSQPDPSVQPSEAQQPASH---PVASNQSKEPAESAAVAHERP----PGGTGSADPERPPGA-----TCPES 1014
Cdd:PRK14086  168 QQ--QRLGFPPRAPYASPASYAPEQERdrePYDAGRPEYDQRRRDYDHPRPdwdrPRRDRTDRPEPPPGAghvhrGGPGP 245

                         170       180       190
                  ....*....|....*....|....*....|..
gi 768007589 1015 PGPGPPHPLGVVESGKGPPPTTEEEASGPPGE 1046
Cdd:PRK14086  246 PERDDAPVVPIRPSAPGPLAAQPAPAPGPGEP 277
PHA03307 super family cl33723
transcriptional regulator ICP4; Provisional
 743-1105 5.52e-04

transcriptional regulator ICP4; Provisional


The actual alignment was detected with superfamily member PHA03307:

Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 45.55  E-value: 5.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  743 DSLDSGVDSVSHTPTPSTPAGFRAVSPAVPFSRSRQPSPLLLLPPPAGLTSDPGPSVRRVPAVQRDSPVIVRNPDVPLPS 822
Cdd:PHA03307   12 EAAAEGGEFFPRPPATPGDAADDLLSGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGPGTEAPANESRSTPTWS 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  823 KFPGEVGTAGEVRAGGPGRGCRETPVPPGVASGKPGLPPPLPAPVPITVPPAAPTAVAQPMPAFGLASSPFQPVAFHPSP 902
Cdd:PHA03307   92 LSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQ 171

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  903 AALLPVLVPSSYTSHPAPKKEVIMGRPGTVWTNVEPRsvavfPWHSLVPFLAPSQPDPSVQPSEAQQPASHPVASNQSKE 982
Cdd:PHA03307  172 AALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSG 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  983 PAESAAVAHERPPGGTGSADPERPPGATCPESPGPGPPHPLGVVESGKGPPPTTEEEASGPPGEPRLDSETESDHDDAFL 1062
Cdd:PHA03307  247 CGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSS 326

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 768007589 1063 SIMSPEIQLPLPPGKRRTQSLSALPKERDSSSEKDGRSPNKRE 1105
Cdd:PHA03307  327 SSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRP 369
 
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 ...
 1108-1185 2.23e-59

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a transcriptional repressor which plays a role in the development of the central nervous system (CNS). In concert with ATXN1 and ATXN1L, CIC is involved in brain development.


Pssm-ID: 438806 [Multi-domain]  Cd Length: 78  Bit Score: 198.45  E-value: 2.23e-59
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1185
Cdd:cd21990     1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
DUF4819 pfam16090
Domain of unknown function (DUF4819); This presumed domain is functionally uncharacterized. ...
 252-346 1.31e-24

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: 99.68  E-value: 1.31e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589   252 DVVLDATPPPGALVVGTAVCTCV----EPGVAAYREGVVVEVATKPAAYKVRLSPGPSSqpglpgslpqppqplhrepEE 327
Cdd:pfam16090    1 DVILDASPSLSDVAVGTRVCVRLdpglEGGENVYREGVVVEVNNKPVRYVVKVSGGDEA-------------------KG 61

                           90
                   ....*....|....*....
gi 768007589   328 AVWVARSSLRLLRPPWEPE 346
Cdd:pfam16090   62 GVWVKRADLRLLRPPWWDE 80
HMG smart00398
high mobility group;
1108-1177 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 768007589   1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:smart00398    1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70
HMG_box pfam00505
HMG (high mobility group) box;
1109-1176 4.33e-17

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 77.65  E-value: 4.33e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589  1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1176
Cdd:pfam00505    1 PKRPMSAFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAEKEKARYEKEHPEY 68
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1765-2183 1.44e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 64.19  E-value: 1.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1765 PAPTTSIRFTLPPGTSTngkvlaATAPTPGIPILQSVPSAPPPKAQSVSPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRG 1844
Cdd:PHA03247 2627 PPPSPSPAANEPDPHPP------PTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLAD 2700

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1845 GGAGQPLPLVSPPFSVPVQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTRITYVQSAGGHAL 1924
Cdd:PHA03247 2701 PPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPP 2780

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1925 PLGTSPASSQAGTVTSYGPTssvalgftslgPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQ--LPPACAAPGGPVITA 2002
Cdd:PHA03247 2781 RRLTRPAVASLSESRESLPS-----------PWDPADPPAAVLAPAAALPPAASPAGPLPPPTsaQPTAPPPPPGPPPPS 2849

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2003 F-YSGSPAPTSSAPLAQPSQAPPSlvyTVATSTTPPAATIlpkgppapatatpapTSPFPSATgsmTYSLVAPKAQRPSP 2081
Cdd:PHA03247 2850 LpLGGSVAPGGDVRRRPPSRSPAA---KPAAPARPPVRRL---------------ARPAVSRS---TESFALPPDQPERP 2908

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2082 KAPQkvkaaIASIPVGSFEAGASGRPGPAPRQPLEPGPVREP---TAPESELEGQPTPPAPPPLPETWTPTARSSPPLPP 2158
Cdd:PHA03247 2909 PQPQ-----APPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPttdPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPA 2983

                         410       420
                  ....*....|....*....|....*
gi 768007589 2159 PAEErTSAKGPETMASKFPSSSSDW 2183
Cdd:PHA03247 2984 PSRE-APASSTPPLTGHSLSRVSSW 3007
NHP6B COG5648
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
1080-1224 1.55e-06

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


Pssm-ID: 227935 [Multi-domain]  Cd Length: 211  Bit Score: 51.40  E-value: 1.55e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1080 TQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYH 1159
Cdd:COG5648    50 TKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYY 121

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1160 DLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPTSLGLAGGHKETRERSMSETG----TAAAPGVSSEL 1224
Cdd:COG5648   122 KEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlveeTKIISKAWSEL 185
PTZ00199 PTZ00199
high mobility group protein; Provisional
 1092-1166 1.83e-06

high mobility group protein; Provisional


Pssm-ID: 185511 [Multi-domain]  Cd Length: 94  Bit Score: 48.31  E-value: 1.83e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 768007589 1092 SSSEKDGRSPNKREKDHI--RRPMNAFMIFSKRHRALVHQRHPN--QDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 1166
Cdd:PTZ00199    4 KQGKVLVRKNKRKKKDPNapKRALSAYMFFAKEKRAEIIAENPElaKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82
dnaA PRK14086
chromosomal replication initiator protein DnaA;
871-1046 3.85e-04

chromosomal replication initiator protein DnaA;


Pssm-ID: 237605 [Multi-domain]  Cd Length: 617  Bit Score: 45.97  E-value: 3.85e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  871 VPPAAPTAVAQPMPAFGLASSPFQPVAFHPSPAALLPVLVPSSY----TSHPAPKKEVIMGRPGTvWtnvePRSVAVFPW 946
Cdd:PRK14086   93 GEPAPPPPHARRTSEPELPRPGRRPYEGYGGPRADDRPPGLPRQdqlpTARPAYPAYQQRPEPGA-W----PRAADDYGW 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  947 HSlvPFLAPSQPDPSVQPSEAQQPASH---PVASNQSKEPAESAAVAHERP----PGGTGSADPERPPGA-----TCPES 1014
Cdd:PRK14086  168 QQ--QRLGFPPRAPYASPASYAPEQERdrePYDAGRPEYDQRRRDYDHPRPdwdrPRRDRTDRPEPPPGAghvhrGGPGP 245

                         170       180       190
                  ....*....|....*....|....*....|..
gi 768007589 1015 PGPGPPHPLGVVESGKGPPPTTEEEASGPPGE 1046
Cdd:PRK14086  246 PERDDAPVVPIRPSAPGPLAAQPAPAPGPGEP 277
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 743-1105 5.52e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 45.55  E-value: 5.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  743 DSLDSGVDSVSHTPTPSTPAGFRAVSPAVPFSRSRQPSPLLLLPPPAGLTSDPGPSVRRVPAVQRDSPVIVRNPDVPLPS 822
Cdd:PHA03307   12 EAAAEGGEFFPRPPATPGDAADDLLSGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGPGTEAPANESRSTPTWS 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  823 KFPGEVGTAGEVRAGGPGRGCRETPVPPGVASGKPGLPPPLPAPVPITVPPAAPTAVAQPMPAFGLASSPFQPVAFHPSP 902
Cdd:PHA03307   92 LSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQ 171

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  903 AALLPVLVPSSYTSHPAPKKEVIMGRPGTVWTNVEPRsvavfPWHSLVPFLAPSQPDPSVQPSEAQQPASHPVASNQSKE 982
Cdd:PHA03307  172 AALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSG 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  983 PAESAAVAHERPPGGTGSADPERPPGATCPESPGPGPPHPLGVVESGKGPPPTTEEEASGPPGEPRLDSETESDHDDAFL 1062
Cdd:PHA03307  247 CGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSS 326

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 768007589 1063 SIMSPEIQLPLPPGKRRTQSLSALPKERDSSSEKDGRSPNKRE 1105
Cdd:PHA03307  327 SSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRP 369
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
1875-2087 8.03e-04

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 44.74  E-value: 8.03e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1875 LTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTriTYVQSAGGHALPLGTSPASSQAGTVTSYGPTSSVALGFTSL 1954
Cdd:COG3469     2 SSVSTAASPTAGGASATAVTLLGAAATAASVTLTAAT--ATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1955 GPSGPAFVQPLLSGQ----APLLAPGQVGVSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTV 2030
Cdd:COG3469    80 ATATAAAAAATSTSAtlvaTSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETA 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 2031 ATSTTPPAATILPKGPPAPATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKV 2087
Cdd:COG3469   160 TGGTTTTSTTTTTTSASTTPSATTTATATTASGATTPSATTTATTTGPPTPGLPKHV 216
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1787-2201 3.40e-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: 3.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1787 AATAPTPGIPILQSVPSA-PPPKAQSVSPVQAPPPGgsaqlLPGKVLVPLAAPSMSVRGGGAGQPLPLVSPpfSVPVQNG 1865
Cdd:pfam03154  180 AASPPSPPPPGTTQAATAgPTPSAPSVPPQGSPATS-----QPPNQTQSTAAPHTLIQQTPTLHPQRLPSP--HPPLQPM 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1866 AQP-PSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVllPSSTRITYVQSAGGHALPLGTSPASSQAGTVTSYGPT 1944
Cdd:pfam03154  253 TQPpPPSQVSPQPLPQPSLHGQMPPMPHSLQTGPSHMQHPV--PPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPS 330

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1945 SSvalgftSLGPSGPAFVQPLLSGQAPL---LAPGQVGVSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQ-PS 2020
Cdd:pfam03154  331 QS------QLQSQQPPREQPLPPAPLSMphiKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQMNSNLPPPPALKPLSSlST 404

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  2021 QAPPSlvytvatsTTPPAATILPKGPPapatatpaptspfpsatgsmtysLVAPKAQRPSPKAPQKVKAAIASIPvgsfe 2100
Cdd:pfam03154  405 HHPPS--------AHPPPLQLMPQSQQ-----------------------LPPPPAQPPVLTQSQSLPPPAASHP----- 448

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  2101 agasgrpgpaPRQPLEPGPVREPTAPESELEGQPTPPAPPPLPETWTPTARSSPPLPPPAEERTSAKGPETMASKFPSSS 2180
Cdd:pfam03154  449 ----------PTSGLHQVPSQSPFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCPLPPVQ 518

                          410       420
                   ....*....|....*....|.
gi 768007589  2181 SDWRVPGQGLENRGEPPTPPS 2201
Cdd:pfam03154  519 IKEEALDEAEEPESPPPPPRS 539
SP1-4_arthropods_N cd22553
N-terminal domain of transcription factor Specificity Protein (SP) 1-4 from arthropods; ...
 1719-2008 4.77e-03

N-terminal domain of transcription factor Specificity Protein (SP) 1-4 from arthropods; Specificity Proteins (SPs) are transcription factors that are involved in many cellular processes, including cell differentiation, cell growth, apoptosis, immune responses, response to DNA damage, and chromatin remodeling. There are many SPs in vertebrates (9 SPs in humans and mice, 7 SPs in the chicken, and 11 SPs in teleost fish), but arthropods only have 3 SPs. One SP is clade SP1-4, which is expressed ubiquitously throughout development. SP1-4 belongs to a family of proteins, called the SP/Kruppel or Krueppel-like Factor (KLF) family, characterized by a C-terminal DNA-binding domain of 81 amino acids consisting of three Kruppel-like C2H2 zinc fingers. These factors bind to a loose consensus motif, namely NNRCRCCYY (where N is any nucleotide; R is A/G, and Y is C/T), such as the recurring motifs in GC and GT boxes (5'-GGGGCGGGG-3' and 5-GGTGTGGGG-3') that are present in promoters and more distal regulatory elements of mammalian genes. SP factors preferentially bind GC boxes, while KLFs bind CACCC boxes. Another characteristic hallmark of SP factors is the presence of the Buttonhead (BTD) box CXCPXC, just N-terminal to the zinc fingers. The function of the BTD box is unknown, but it is thought to play an important physiological role. Another feature of most SP factors is the presence of a conserved amino acid stretch, the so-called SP box, located close to the N-terminus. This model represents the N-terminal domain of SP1-4 from arthropods.


Pssm-ID: 411778 [Multi-domain]  Cd Length: 384  Bit Score: 41.94  E-value: 4.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1719 ILQPGALGKAGGIT-----QVQYI---------LPTLPQQLQVAPAPAPAPGTKAAAPSGPAPTTSIRFTLPPGTSTNGK 1784
Cdd:cd22553    53 ITAQSSGSAAGGVAysvspAVQTVtvdgheaifIPANSGLLQTNNQQAIQLAPGGTQAILANQQTLIRPNTVQGQANASN 132

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1785 VLAATAPTPGIpiLQSVPSAPPPKAQSVsPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSPPFSVPVQn 1864
Cdd:cd22553   133 VLQNIAQIASG--GNAVQLPLNNMTQTI-PVQVPVSTANGQTVYQTIQVPIQAIQSGNAGGGNQALQAQVIPQLAQAAQ- 208

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1865 gaQPPSKIIQltpvpvstPSGLVpplSPATLPGPTS--QPQKV-LLPSSTRITYVQSAGGHALPLGTSPASSQAGTvtsy 1941
Cdd:cd22553   209 --LQPQQLAQ--------VSSQG---YIQQIPANASqqQPQMVqQGPNQSGQIIGQVASASSIQAAAIPLTVYTGA---- 271

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1942 gptsSVALGFTSLGPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLPpacAAPGGPVITAFYSGSP 2008
Cdd:cd22553   272 ----LAGQNGSNQQQVGQIVTSPIQGMTQGLTAPASSSIPTVVQQQAI---QGNPLPPGTQIIAAGQ 331
 
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 ...
 1108-1185 2.23e-59

high mobility group (HMG)-box found in protein capicua (CIC) and similar proteins; CIC is a transcriptional repressor which plays a role in the development of the central nervous system (CNS). In concert with ATXN1 and ATXN1L, CIC is involved in brain development.


Pssm-ID: 438806 [Multi-domain]  Cd Length: 78  Bit Score: 198.45  E-value: 2.23e-59
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1185
Cdd:cd21990     1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
HMG-box_HBP2 cd21989
high mobility group (HMG)-box found in HMG box-containing protein 2 (HBP2) and similar ...
 1110-1178 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1178
Cdd:cd21989     1 RRPMNAFLLFCKRHRSLVRERHPRLDNRGITKILGDWWAVLDPDEKQKYTDLAKQYKEAFMKANPNFKW 69
DUF4819 pfam16090
Domain of unknown function (DUF4819); This presumed domain is functionally uncharacterized. ...
 252-346 1.31e-24

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: 99.68  E-value: 1.31e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589   252 DVVLDATPPPGALVVGTAVCTCV----EPGVAAYREGVVVEVATKPAAYKVRLSPGPSSqpglpgslpqppqplhrepEE 327
Cdd:pfam16090    1 DVILDASPSLSDVAVGTRVCVRLdpglEGGENVYREGVVVEVNNKPVRYVVKVSGGDEA-------------------KG 61

                           90
                   ....*....|....*....
gi 768007589   328 AVWVARSSLRLLRPPWEPE 346
Cdd:pfam16090   62 GVWVKRADLRLLRPPWWDE 80
HMG-box_SOX cd22004
high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family ...
 1108-1181 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 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNK 1181
Cdd:cd22004     1 HIKRPMNAFMVWSQQERKKIAKQNPKLHNSEISKILGKEWKKLTEEEKRPYVEEAERLREEHKKEYPDYKYRPR 74
HMG-box_ROX1-like cd01389
high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar ...
 1109-1177 1.88e-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: 89.95  E-value: 1.88e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 768007589 1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:cd01389     1 IPRPPNAFILFRKEKHKQLRAQNPGLTNSEISKIIGKMWKNLSEEEKEPYKELAEEEKEEHKLKYPDYK 69
HMG-box_SoxH_SOX30 cd22033
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 30 (SOX30) and ...
 1108-1179 9.42e-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: 9.42e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWC 1179
Cdd:cd22033     1 HIKRPMNAFMVWARIHRPALAKANPNANNADISVQLGEEWNKLTEEQKKPYYDEAQKLKEQHRKEHPGWVYQ 72
HMG smart00398
high mobility group;
1108-1177 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 768007589   1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:smart00398    1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70
HMG-box_HBP1 cd21988
high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar ...
 1110-1177 1.96e-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: 1.96e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPD-WK 1177
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 ...
 1108-1185 2.57e-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: 81.25  E-value: 2.57e-18
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1185
Cdd:cd22028     1 RVKRPMNAFMVWSREQRRKIAQENPKMHNSEISKRLGAEWKQLSEDEKRPFIDEAKRLRAQHMKEHPDYKY--RPRRK 76
HMG_box pfam00505
HMG (high mobility group) box;
1109-1176 4.33e-17

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 77.65  E-value: 4.33e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589  1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1176
Cdd:pfam00505    1 PKRPMSAFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAEKEKARYEKEHPEY 68
HMG-box_EGL13-like cd22042
high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 ...
 1108-1178 1.02e-16

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: 1.02e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1178
Cdd:cd22042     2 HIKRPMNAFMVWAKDERRKILKACPDMHNSNISKILGAKWKAMSNAEKQPYYEEQSRLSKLHMEKHPDYRY 72
HMG-box_SF cd00084
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ...
 1111-1169 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 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1169
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) ...
 1107-1188 1.44e-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: 1.44e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1107 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 1186
Cdd:cd01388     1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSEAEKRPFIDEAKRLRALHMKEHPDYKY--RPRRKT 78


                  ..
gi 768007589 1187 SS 1188
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) ...
 1108-1185 5.06e-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: 5.06e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1185
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) ...
 1108-1178 9.19e-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: 9.19e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1178
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 ...
 1108-1185 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 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK-----WCNKD 1182
Cdd:cd21996     1 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSardnyGKKKK 80


                  ...
gi 768007589 1183 RKK 1185
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) ...
 1108-1178 3.47e-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: 3.47e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1178
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) ...
 1108-1185 6.63e-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: 6.63e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1185
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 ...
 1099-1185 1.59e-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: 68.18  E-value: 1.59e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1099 RSP-NKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:cd22046     1 RSPgEKGSEPRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGKSWKALTPSQKRPYVEEAERLRVQHMQDYPNYK 80


                  ....*...
gi 768007589 1178 WCNKDRKK 1185
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 ...
 1109-1185 1.93e-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: 1.93e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1185
Cdd:cd22048     4 IRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGQSWKSLSAAEKRPFVEEAERLRVQHLQDHPNYKYRPRRKKQ 80
HMG-box_SoxF_SOX17 cd22047
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and ...
 1109-1178 1.34e-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: 65.11  E-value: 1.34e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 1178
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 ...
 1107-1186 2.79e-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: 64.33  E-value: 2.79e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1107 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 1186
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 ...
 1103-1186 1.21e-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: 1.21e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1103 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKD 1182
Cdd:cd22038     6 KTPSGHIKRPMNAFMVWSQIERRKIMEQWPDMHNAEISKRLGRRWKLLQDYEKIPFIKEAERLRLKHMADYPDYKY--RP 83


                  ....
gi 768007589 1183 RKKS 1186
Cdd:cd22038    84 RKKS 87
HMG-box_SoxA_SRY cd22034
high mobility group (HMG)-box found in sex-determining region Y protein (SRY) and similar ...
 1106-1185 7.93e-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: 7.93e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1106 KDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 1185
Cdd:cd22034     2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAK 81
HMG-box_NHP6-like cd01390
high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone chromosomal ...
 1096-1169 8.76e-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: 57.38  E-value: 8.76e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 768007589 1096 KDGRSPNKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1169
Cdd:cd01390     1 KKKKGRKKKDPNAPKRGLSAYMFFSQDNREKVKEENPDATFGEVGKLLGEKWKELSEEEKAPYEEKAAKDKKRY 74
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1765-2183 1.44e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 64.19  E-value: 1.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1765 PAPTTSIRFTLPPGTSTngkvlaATAPTPGIPILQSVPSAPPPKAQSVSPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRG 1844
Cdd:PHA03247 2627 PPPSPSPAANEPDPHPP------PTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLAD 2700

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1845 GGAGQPLPLVSPPFSVPVQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTRITYVQSAGGHAL 1924
Cdd:PHA03247 2701 PPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPP 2780

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1925 PLGTSPASSQAGTVTSYGPTssvalgftslgPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQ--LPPACAAPGGPVITA 2002
Cdd:PHA03247 2781 RRLTRPAVASLSESRESLPS-----------PWDPADPPAAVLAPAAALPPAASPAGPLPPPTsaQPTAPPPPPGPPPPS 2849

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2003 F-YSGSPAPTSSAPLAQPSQAPPSlvyTVATSTTPPAATIlpkgppapatatpapTSPFPSATgsmTYSLVAPKAQRPSP 2081
Cdd:PHA03247 2850 LpLGGSVAPGGDVRRRPPSRSPAA---KPAAPARPPVRRL---------------ARPAVSRS---TESFALPPDQPERP 2908

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2082 KAPQkvkaaIASIPVGSFEAGASGRPGPAPRQPLEPGPVREP---TAPESELEGQPTPPAPPPLPETWTPTARSSPPLPP 2158
Cdd:PHA03247 2909 PQPQ-----APPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPttdPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPA 2983

                         410       420
                  ....*....|....*....|....*
gi 768007589 2159 PAEErTSAKGPETMASKFPSSSSDW 2183
Cdd:PHA03247 2984 PSRE-APASSTPPLTGHSLSRVSSW 3007
HMG-box_SoxC_SOX4 cd22036
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar ...
 1108-1185 1.66e-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: 56.29  E-value: 1.66e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1108 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 1185
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 ...
 1103-1188 1.72e-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: 1.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1103 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKD 1182
Cdd:cd22037     6 KTATGHIKRPMNAFMVWSKIERRKIMEQSPDMHNAEISKRLGKRWKMLKDSEKIPFIREAERLRLKHMADYPDYKYRPRK 85


                  ....*.
gi 768007589 1183 RKKSSS 1188
Cdd:cd22037    86 KPKVDP 91
HMG-box_SSRP1-like cd21994
high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and ...
 1111-1177 1.38e-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: 1.38e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:cd21994     1 RPMSAYMLWLNENREKIKKENPGISVTEISKKAGEIWKELDEEDKEKWEQKAEKAKERYDKAMKEYK 67
HMG-box_HMG20 cd21980
high mobility group (HMG)-box found in the high mobility group protein 20 (HMG20) subfamily; ...
 1110-1167 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1167
Cdd:cd21980     3 KAPLTGYVRFLNERREKLRAENPDLSFPEITKILGAEWSSLSAEEKQKYLDEAEKDKE 60
HMG-box_ABF2_IXR1-like_rpt2 cd22012
second high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...
 1111-1160 8.22e-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: 8.22e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 1160
Cdd:cd22012     4 RPASAYFLFAKEVRPKLKEENPNEKYTDITKLISEKWRSLDESEKEPYQE 53
HMG-box_AtHMGB6-like_rpt1 cd22006
first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 1110-1171 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1171
Cdd:cd22006     1 KKPKTAYFLWCKDQREEVKKENPNADFSEVSKILGAKWKNLSEEEKKPYEEKYKEEKEKYLK 62
HMG-box_HMGB_rpt2 cd21979
second high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; ...
 1110-1171 6.26e-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: 6.26e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1171
Cdd:cd21979     4 KRPPSAFFLFCSEHRPKIKGEHPGLSIGDVAKKLGEMWNNTSAKDKQPYEKKAAKLKEKYEK 65
HMG-box_AtHMGB6-like_rpt3 cd22008
third high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 1101-1172 6.75e-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: 6.75e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 768007589 1101 PNKREKdhirrPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1172
Cdd:cd22008     7 PNKPKK-----PASSYLLFGKEYRKKLQEERPGANNATVTALISLKWKELGEEEKQVYNDKAAVLMEKYKKE 73
HMG-box_ABF2-like_rpt1 cd22010
first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...
 1110-1176 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1176
Cdd:cd22010     2 KRPLSAYFLYFQEHRSDFVKENPDAKMTEISKIGGDKWKNLSADDKKKYEDDFQRELSEYQKAKAEF 68
NHP6B COG5648
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
1080-1224 1.55e-06

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


Pssm-ID: 227935 [Multi-domain]  Cd Length: 211  Bit Score: 51.40  E-value: 1.55e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1080 TQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYH 1159
Cdd:COG5648    50 TKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYY 121

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1160 DLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPTSLGLAGGHKETRERSMSETG----TAAAPGVSSEL 1224
Cdd:COG5648   122 KEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlveeTKIISKAWSEL 185
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1742-2199 1.75e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 53.79  E-value: 1.75e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1742 PQQLQVAPAPAPAPGTKAAAPSGPAPTtsiRFTLPPGTSTNGKVLAATAPTPGipilQSVPSAPPPKAQSVSPVQAPPPG 1821
Cdd:PHA03247 2633 PAANEPDPHPPPTVPPPERPRDDPAPG---RVSRPRRARRLGRAAQASSPPQR----PRRRAARPTVGSLTSLADPPPPP 2705

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1822 GSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSPPFSVPvQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQ 1901
Cdd:PHA03247 2706 PTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVP-AGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLT 2784

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1902 PQKVllpsstrityvqSAGGHALPLGTSPASSQAGTVTSYGPTSSVAlgfTSLGPSGPAFVQPLLSGQAPLLAPGqvgvs 1981
Cdd:PHA03247 2785 RPAV------------ASLSESRESLPSPWDPADPPAAVLAPAAALP---PAASPAGPLPPPTSAQPTAPPPPPG----- 2844

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1982 PVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQPSQ--APPSLVYTVATSTTPPAATILPKGPPAPATATPAPTSP 2059
Cdd:PHA03247 2845 PPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRrlARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPP 2924

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2060 FPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFEAGASGRPGPAPRQPLEPGPVREPTAPESelegQPTPPAP 2139
Cdd:PHA03247 2925 PPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAPSREAPASST----PPLTGHS 3000

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 768007589 2140 PPLPETWTPT-ARSSPPLPPPAEERTSAKGPETMASKFPSSSSDWRVPGQGLE----NRGEPPTP 2199
Cdd:PHA03247 3001 LSRVSSWASSlALHEETDPPPVSLKQTLWPPDDTEDSDADSLFDSDSERSDLEaldpLPPEPHDP 3065
PTZ00199 PTZ00199
high mobility group protein; Provisional
 1092-1166 1.83e-06

high mobility group protein; Provisional


Pssm-ID: 185511 [Multi-domain]  Cd Length: 94  Bit Score: 48.31  E-value: 1.83e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 768007589 1092 SSSEKDGRSPNKREKDHI--RRPMNAFMIFSKRHRALVHQRHPN--QDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 1166
Cdd:PTZ00199    4 KQGKVLVRKNKRKKKDPNapKRALSAYMFFAKEKRAEIIAENPElaKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82
HMG_box_2 pfam09011
HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate ...
 1101-1176 9.37e-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: 45.47  E-value: 9.37e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 768007589  1101 PNKRekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 1176
Cdd:pfam09011    1 PNKP-----KRARNAYAFFVQEMIPEHKRQNPVIGFAEVSKLCSERWKNLSEEEKEKYEEMAKEDKNRYDREMGTY 71
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 1787-2173 1.08e-05

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 51.14  E-value: 1.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1787 AATAPTPGIPILQSVPSAPPPKAQSvsPVQAPPPGGSAqllPGKVLVPLAAPSMSVRGGGAGQPLPLVSPPFSVPVQNGA 1866
Cdd:PRK07764  406 PAAAPAPAAAAPAAAAAPAPAAAPQ--PAPAPAPAPAP---PSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAP 480

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1867 QPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVL--LPSSTRIT------YVQSAG--GHALPLG-TSPAS--- 1932
Cdd:PRK07764  481 APAPPAAPAPAAAPAAPAAPAAPAGADDAATLRERWPEILaaVPKRSRKTwaillpEATVLGvrGDTLVLGfSTGGLarr 560

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1933 -SQAGTVTSY------------GPTSSVALGFTSLGPSGPAFVQPLLSGQAPLlAPGQVGVSPVPSPQLPPACAAPGGPV 1999
Cdd:PRK07764  561 fASPGNAEVLvtalaeelggdwQVEAVVGPAPGAAGGEGPPAPASSGPPEEAA-RPAAPAAPAAPAAPAPAGAAAAPAEA 639

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2000 ITAFYSGSPAPTSSAPlAQPSQAPPSLVYTVATSTTPPAATilpkgppaPATATPAPTSPFPSATGSMTYSLVAPKAQRP 2079
Cdd:PRK07764  640 SAAPAPGVAAPEHHPK-HVAVPDASDGGDGWPAKAGGAAPA--------APPPAPAPAAPAAPAGAAPAQPAPAPAATPP 710

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2080 SPKAPQKvkaaiASIPVGSFEAGASGRPGPAPRQPLEPGPVREPTAPEseLEGQPTPPAPPPLPETWTPTARSSPPLPPP 2159
Cdd:PRK07764  711 AGQADDP-----AAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAG--APAQPPPPPAPAPAAAPAAAPPPSPPSEEE 783

                         410
                  ....*....|....
gi 768007589 2160 AEERTSAKGPETMA 2173
Cdd:PRK07764  784 EMAEDDAPSMDDED 797
HMG-box_UBF1_rpt4 cd22001
fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ...
 1107-1167 1.28e-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: 1.28e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 768007589 1107 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1167
Cdd:cd22001     1 EKPKRPISAMFIYSKEKRSKLKKKHPELSEQELTRLLAKKYNELPDKKKAKYKKKEALAKA 61
HMG-box_AtHMGB6-like_rpt2 cd22007
second high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 1110-1172 1.29e-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: 44.94  E-value: 1.29e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1172
Cdd:cd22007     2 KRPQSAYFLYANDRRAALKEENKNVKITEIAKMLGAEWKNLSDAKKKPYEEKAKKLKEAYLQE 64
HMG-box_NHP10-like cd22016
high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone protein 10 (NHP10) ...
 1095-1167 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 768007589 1095 EKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQR----HPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1167
Cdd:cd22016     2 EKDPNAP--------KRPANAFFLFCQEQREKVREEykeeHQEIDHHDLTKALAQAWRNLDAEDKKPYYELYEKDKE 70
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1516-2038 2.25e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 50.32  E-value: 2.25e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1516 GGLEPPGPSViAAPPSGGGNILQTLVLPPNKEEQEGGGARVPSAPAPSLAYGAPAAPLSRPAATMVTNVVRPVSSTPVPI 1595
Cdd:PHA03247 2549 GDPPPPLPPA-APPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPP 2627

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1596 ASKPFPtsgRAEASPNDTAGARTEMGTGSRVPGGSPLGVSLVYSDKKSAAATSPAPHlvaGPLLGTVGKAPATVTNLLVG 1675
Cdd:PHA03247 2628 PPSPSP---AANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQ---RPRRRAARPTVGSLTSLADP 2701

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1676 TPGYGAPAPPavqfiaqgapgggttagsgaGAGSGPNGPVPLGILQPGALGKAGGITQVQYILPTLPQqlqvapapapap 1755
Cdd:PHA03247 2702 PPPPPTPEPA--------------------PHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPA------------ 2749

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1756 gtkaaapsgpAPTTSIRFTLPPGTSTNGKVLAATAPTPGIPilqsvPSAPPPKAQSVSPVQAPPPGGSAqllPGKVLVPL 1835
Cdd:PHA03247 2750 ----------TPGGPARPARPPTTAGPPAPAPPAAPAAGPP-----RRLTRPAVASLSESRESLPSPWD---PADPPAAV 2811

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1836 AAPSMSVRGggAGQPLPLVSPPFSVPVQNGAQPPSkiiqlTPVPVSTPSGLVPPLSPATLPGPTSQP-QKVLLPSSTRIT 1914
Cdd:PHA03247 2812 LAPAAALPP--AASPAGPLPPPTSAQPTAPPPPPG-----PPPPSLPLGGSVAPGGDVRRRPPSRSPaAKPAAPARPPVR 2884

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1915 YVqsagghalplgTSPASSQagtvtsygPTSSVALgftslgPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLPPACAA 1994
Cdd:PHA03247 2885 RL-----------ARPAVSR--------STESFAL------PPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRP 2939

                         490       500       510       520
                  ....*....|....*....|....*....|....*....|....
gi 768007589 1995 PGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTVATSTTPPA 2038
Cdd:PHA03247 2940 QPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQPA 2983
PHA03247 PHA03247
large tegument protein UL36; Provisional
 1777-2194 2.82e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 49.94  E-value: 2.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1777 PGTSTNGKVLAATAPTPGIPILQSVPSAPPPKA---------QSVSPVQAPPPGGSAQLLPgkvlvPLAAPSMSVRGGGA 1847
Cdd:PHA03247 2496 PDPGGGGPPDPDAPPAPSRLAPAILPDEPVGEPvhprmltwiRGLEELASDDAGDPPPPLP-----PAAPPAAPDRSVPP 2570

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1848 GQPLPLVSPPfsvPVQNGAQPPSKIIQLT--PVPVSTPSGLVPPLSPATLPGPTSQPQKVllPSSTRITYVQSAGGHALP 1925
Cdd:PHA03247 2571 PRPAPRPSEP---AVTSRARRPDAPPQSArpRAPVDDRGDPRGPAPPSPLPPDTHAPDPP--PPSPSPAANEPDPHPPPT 2645

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1926 LGTSPASSQAGTVTSYGPTSSVALGFTSLGPSGPafvqplLSGQAPLLAPGQVGvsPVPSPQLPPACAAPGGPVITAFYS 2005
Cdd:PHA03247 2646 VPPPERPRDDPAPGRVSRPRRARRLGRAAQASSP------PQRPRRRAARPTVG--SLTSLADPPPPPPTPEPAPHALVS 2717

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2006 GSPAPTSSAPLAQPSQAPPslvytvATSTTPPAATilpkgppapATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQ 2085
Cdd:PHA03247 2718 ATPLPPGPAAARQASPALP------AAPAPPAVPA---------GPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRR 2782

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2086 KVKAAIASipvgsfeAGASGRPGPAPRQPLEPGPVREPTAPeselegqptppappplpeTWTPTARSSPPLPPPAEERTS 2165
Cdd:PHA03247 2783 LTRPAVAS-------LSESRESLPSPWDPADPPAAVLAPAA------------------ALPPAASPAGPLPPPTSAQPT 2837

                         410       420
                  ....*....|....*....|....*....
gi 768007589 2166 AKGPETMASKFPSSSSDWRVPGQGLENRG 2194
Cdd:PHA03247 2838 APPPPPGPPPPSLPLGGSVAPGGDVRRRP 2866
HMG-box_PMS1 cd21985
high mobility group (HMG)-box found in PMS1 protein homolog 1 (PMS1) and similar proteins; ...
 1109-1169 3.65e-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: 3.65e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 768007589 1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1169
Cdd:cd21985     2 IRKPMSASALFEQETRPQFLAENPKASLQDITLKIEERWKNLSEEEKKKYEEKAAKDLERY 62
HMG-box_AtHMGB1-like cd22005
high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B protein 1 ...
 1111-1166 4.35e-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: 43.07  E-value: 4.35e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 1166
Cdd:cd22005     2 RPPTAFFLFLADFRKTYKKKNPDKSVKAVGKAAGEKWKSMSDEEKAPYVEKAEKEK 57
HMG-box_HMGB_rpt1 cd21978
first high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; ...
 1110-1167 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQ--DNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1167
Cdd:cd21978     3 RGKMSSYAFFVQTCREEHKKKHPNEsvNFSEFSKKCSERWKTMSAKEKKKFEDMAKKDKA 62
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 1765-2161 2.42e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 46.70  E-value: 2.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1765 PAPTTSIRFTLPPGTSTNGKVLAATAPTPGIPilqSVPSAPPPKAQSVSPVQAPPPGGSAQLLPGKVLVPLAAPSMsvrg 1844
Cdd:PHA03307   80 PANESRSTPTWSLSTLAPASPAREGSPTPPGP---SSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASP---- 152

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1845 ggAGQPLPLVSPPFSVPVQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPqkvllPSSTRITYVQSAGGHAL 1924
Cdd:PHA03307  153 --PAAGASPAAVASDAASSRQAALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAPG 225

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1925 PLGTSPASSqagtvTSYGPTSSVALGFTSLGPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLPPACAAPGGPvitafy 2004
Cdd:PHA03307  226 RSAADDAGA-----SSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRER------ 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2005 sgSPAPTSSAPLAQPSQAPPSLVYTVATSTTPPAATILPKGPPAPATATPAPTSPFPSATGSMTyslvapkaqrPSPKAP 2084
Cdd:PHA03307  295 --SPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRP----------PPPADP 362

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 2085 QKVKAAIASIPVGSFEAGASGRPGPAPRQPLEPGPVREPTAPESeLEGQPTPPAPPPLPETWTPTARSSPPLPPPAE 2161
Cdd:PHA03307  363 SSPRKRPRPSRAPSSPAASAGRPTRRRARAAVAGRARRRDATGR-FPAGRPRPSPLDAGAASGAFYARYPLLTPSGE 438
HMG-box_BHMG1 cd21977
high mobility group (HMG)-box found in basic helix-loop-helix and HMG box domain-containing ...
 1113-1169 3.12e-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: 3.12e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1113 MNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 1169
Cdd:cd21977     5 VNGFIMFCRLNRKNYIDKHPGLASTELTKELGQLWRELSAEEKKPYCVRARELSQLH 61
dnaA PRK14086
chromosomal replication initiator protein DnaA;
871-1046 3.85e-04

chromosomal replication initiator protein DnaA;


Pssm-ID: 237605 [Multi-domain]  Cd Length: 617  Bit Score: 45.97  E-value: 3.85e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  871 VPPAAPTAVAQPMPAFGLASSPFQPVAFHPSPAALLPVLVPSSY----TSHPAPKKEVIMGRPGTvWtnvePRSVAVFPW 946
Cdd:PRK14086   93 GEPAPPPPHARRTSEPELPRPGRRPYEGYGGPRADDRPPGLPRQdqlpTARPAYPAYQQRPEPGA-W----PRAADDYGW 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  947 HSlvPFLAPSQPDPSVQPSEAQQPASH---PVASNQSKEPAESAAVAHERP----PGGTGSADPERPPGA-----TCPES 1014
Cdd:PRK14086  168 QQ--QRLGFPPRAPYASPASYAPEQERdrePYDAGRPEYDQRRRDYDHPRPdwdrPRRDRTDRPEPPPGAghvhrGGPGP 245

                         170       180       190
                  ....*....|....*....|....*....|..
gi 768007589 1015 PGPGPPHPLGVVESGKGPPPTTEEEASGPPGE 1046
Cdd:PRK14086  246 PERDDAPVVPIRPSAPGPLAAQPAPAPGPGEP 277
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
1884-2115 5.02e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 45.64  E-value: 5.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1884 SGLVPPLSPATLPGPTSQPQKVLLPSSTRITYVQSAGGHALPLGTSPASSQAGTVTSYGPTSSVALGFTSLGPSGPAfvq 1963
Cdd:PRK12323  369 GGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPG--- 445

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1964 pllSGQAPLLAPgqvgvSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTVATSTTPP----AA 2039
Cdd:PRK12323  446 ---GAPAPAPAP-----AAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPaqpdAA 517

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 768007589 2040 TILPKGPPAPATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIASipvGSFEAGASGRPGPAPRQPL 2115
Cdd:PRK12323  518 PAGWVAESIPDPATADPDDAFETLAPAPAAAPAPRAAAATEPVVAPRPPRASAS---GLPDMFDGDWPALAARLPV 590
HMG-box_SMARCE1 cd21983
high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent ...
 1111-1160 5.40e-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: 5.40e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 1160
Cdd:cd21983     7 KPLMPYMRYSRKVWDQVKASNPDLKLWEIGKIIGQMWRELSDEEKQEYIE 56
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 743-1105 5.52e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 45.55  E-value: 5.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  743 DSLDSGVDSVSHTPTPSTPAGFRAVSPAVPFSRSRQPSPLLLLPPPAGLTSDPGPSVRRVPAVQRDSPVIVRNPDVPLPS 822
Cdd:PHA03307   12 EAAAEGGEFFPRPPATPGDAADDLLSGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGPGTEAPANESRSTPTWS 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  823 KFPGEVGTAGEVRAGGPGRGCRETPVPPGVASGKPGLPPPLPAPVPITVPPAAPTAVAQPMPAFGLASSPFQPVAFHPSP 902
Cdd:PHA03307   92 LSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQ 171

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  903 AALLPVLVPSSYTSHPAPKKEVIMGRPGTVWTNVEPRsvavfPWHSLVPFLAPSQPDPSVQPSEAQQPASHPVASNQSKE 982
Cdd:PHA03307  172 AALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSG 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  983 PAESAAVAHERPPGGTGSADPERPPGATCPESPGPGPPHPLGVVESGKGPPPTTEEEASGPPGEPRLDSETESDHDDAFL 1062
Cdd:PHA03307  247 CGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSS 326

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|...
gi 768007589 1063 SIMSPEIQLPLPPGKRRTQSLSALPKERDSSSEKDGRSPNKRE 1105
Cdd:PHA03307  327 SSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRP 369
HMG-box_PB1 cd21984
high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, ...
 1110-1167 6.05e-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: 6.05e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 1167
Cdd:cd21984     1 KRNPSGYILFSSEVRKSIKAENPDYSFGEISRLVGTEWRNLPAEKKAEYEERAQKQAE 58
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
1875-2087 8.03e-04

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 44.74  E-value: 8.03e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1875 LTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTriTYVQSAGGHALPLGTSPASSQAGTVTSYGPTSSVALGFTSL 1954
Cdd:COG3469     2 SSVSTAASPTAGGASATAVTLLGAAATAASVTLTAAT--ATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1955 GPSGPAFVQPLLSGQ----APLLAPGQVGVSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTV 2030
Cdd:COG3469    80 ATATAAAAAATSTSAtlvaTSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETA 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 2031 ATSTTPPAATILPKGPPAPATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKV 2087
Cdd:COG3469   160 TGGTTTTSTTTTTTSASTTPSATTTATATTASGATTPSATTTATTTGPPTPGLPKHV 216
HMG-box_AtSSRP1 cd22013
high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and ...
 1103-1177 1.58e-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: 39.46  E-value: 1.58e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1103 KREKD--HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 1177
Cdd:cd22013     1 KKKKDpnAPKRALSGFMFFSLMERENLKKEKPGISFGEVGKVLGEKWKNMSADDKAPYEAKAQVDKERYKKEMSGYK 77
HMG-box_NSD2 cd21991
high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and ...
 1109-1158 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 768007589 1109 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKY 1158
Cdd:cd21991     2 KKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARY 51
HMG-box_HMG20B cd22018
high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar ...
 1110-1171 2.19e-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: 39.19  E-value: 2.19e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 1171
Cdd:cd22018     3 KAPVTGYVRFLNERREQIRTQHPDLPFPEITKMLGAEWSKLQPHEKQRYLDEAERDKQQYMK 64
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
1955-2194 2.49e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 43.33  E-value: 2.49e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1955 GPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTVATST 2034
Cdd:PRK12323  370 GGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPA 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2035 TPPAATILPKGPPAPATATPAptsPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFEAGASGRPGPAPRQP 2114
Cdd:PRK12323  450 PAPAPAAAPAAAARPAAAGPR---PVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGWVAESI 526

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 2115 LEPGPVREPTAPESELEGQPTPPAPpplpetwtPTARSSPPLPPPAEERTSAKGPETMaskfpsSSSDWRVPGQGLENRG 2194
Cdd:PRK12323  527 PDPATADPDDAFETLAPAPAAAPAP--------RAAAATEPVVAPRPPRASASGLPDM------FDGDWPALAARLPVRG 592
HMG-box_HMGXB4 cd21982
high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar ...
 1110-1156 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 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQ 1156
Cdd:cd21982     2 KKNMSAYQVFCKEYRVSIVAEHPGIDFGELSKKLAEVWKQLPEKDKL 48
HMG-box_CMB1-like cd22014
high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 ...
 1111-1172 3.20e-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: 3.20e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 768007589 1111 RPMNAFMIFSKRHRALVHQRHPNQDNrtvSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1172
Cdd:cd22014     3 RPPSPFLLFMEEFRRNEDNGKNLVEL---SRIAAEAWKNMSEDEKQPYIDRAKELLEEYKKQ 61
HMG-box_UBF1_rpt1-like cd21998
first high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ...
 1107-1175 3.34e-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: 3.34e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 768007589 1107 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD------LAFQVKEAHFKA-HPD 1175
Cdd:cd21998     2 DFPKKPLTPYFRFFMEKRAKYAKKHPEMSNLELTKILSKKYKELPEKKKQKYIQdyekekEEYEQKMARFREeHPD 77
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 1787-2201 3.40e-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: 3.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1787 AATAPTPGIPILQSVPSA-PPPKAQSVSPVQAPPPGgsaqlLPGKVLVPLAAPSMSVRGGGAGQPLPLVSPpfSVPVQNG 1865
Cdd:pfam03154  180 AASPPSPPPPGTTQAATAgPTPSAPSVPPQGSPATS-----QPPNQTQSTAAPHTLIQQTPTLHPQRLPSP--HPPLQPM 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1866 AQP-PSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVllPSSTRITYVQSAGGHALPLGTSPASSQAGTVTSYGPT 1944
Cdd:pfam03154  253 TQPpPPSQVSPQPLPQPSLHGQMPPMPHSLQTGPSHMQHPV--PPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPS 330

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1945 SSvalgftSLGPSGPAFVQPLLSGQAPL---LAPGQVGVSPVPSPQLPPACAAPGGPVITAFYSGSPAPTSSAPLAQ-PS 2020
Cdd:pfam03154  331 QS------QLQSQQPPREQPLPPAPLSMphiKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQMNSNLPPPPALKPLSSlST 404

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  2021 QAPPSlvytvatsTTPPAATILPKGPPapatatpaptspfpsatgsmtysLVAPKAQRPSPKAPQKVKAAIASIPvgsfe 2100
Cdd:pfam03154  405 HHPPS--------AHPPPLQLMPQSQQ-----------------------LPPPPAQPPVLTQSQSLPPPAASHP----- 448

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  2101 agasgrpgpaPRQPLEPGPVREPTAPESELEGQPTPPAPPPLPETWTPTARSSPPLPPPAEERTSAKGPETMASKFPSSS 2180
Cdd:pfam03154  449 ----------PTSGLHQVPSQSPFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCPLPPVQ 518

                          410       420
                   ....*....|....*....|.
gi 768007589  2181 SDWRVPGQGLENRGEPPTPPS 2201
Cdd:pfam03154  519 IKEEALDEAEEPESPPPPPRS 539
SP1-4_arthropods_N cd22553
N-terminal domain of transcription factor Specificity Protein (SP) 1-4 from arthropods; ...
 1719-2008 4.77e-03

N-terminal domain of transcription factor Specificity Protein (SP) 1-4 from arthropods; Specificity Proteins (SPs) are transcription factors that are involved in many cellular processes, including cell differentiation, cell growth, apoptosis, immune responses, response to DNA damage, and chromatin remodeling. There are many SPs in vertebrates (9 SPs in humans and mice, 7 SPs in the chicken, and 11 SPs in teleost fish), but arthropods only have 3 SPs. One SP is clade SP1-4, which is expressed ubiquitously throughout development. SP1-4 belongs to a family of proteins, called the SP/Kruppel or Krueppel-like Factor (KLF) family, characterized by a C-terminal DNA-binding domain of 81 amino acids consisting of three Kruppel-like C2H2 zinc fingers. These factors bind to a loose consensus motif, namely NNRCRCCYY (where N is any nucleotide; R is A/G, and Y is C/T), such as the recurring motifs in GC and GT boxes (5'-GGGGCGGGG-3' and 5-GGTGTGGGG-3') that are present in promoters and more distal regulatory elements of mammalian genes. SP factors preferentially bind GC boxes, while KLFs bind CACCC boxes. Another characteristic hallmark of SP factors is the presence of the Buttonhead (BTD) box CXCPXC, just N-terminal to the zinc fingers. The function of the BTD box is unknown, but it is thought to play an important physiological role. Another feature of most SP factors is the presence of a conserved amino acid stretch, the so-called SP box, located close to the N-terminus. This model represents the N-terminal domain of SP1-4 from arthropods.


Pssm-ID: 411778 [Multi-domain]  Cd Length: 384  Bit Score: 41.94  E-value: 4.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1719 ILQPGALGKAGGIT-----QVQYI---------LPTLPQQLQVAPAPAPAPGTKAAAPSGPAPTTSIRFTLPPGTSTNGK 1784
Cdd:cd22553    53 ITAQSSGSAAGGVAysvspAVQTVtvdgheaifIPANSGLLQTNNQQAIQLAPGGTQAILANQQTLIRPNTVQGQANASN 132

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1785 VLAATAPTPGIpiLQSVPSAPPPKAQSVsPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSPPFSVPVQn 1864
Cdd:cd22553   133 VLQNIAQIASG--GNAVQLPLNNMTQTI-PVQVPVSTANGQTVYQTIQVPIQAIQSGNAGGGNQALQAQVIPQLAQAAQ- 208

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1865 gaQPPSKIIQltpvpvstPSGLVpplSPATLPGPTS--QPQKV-LLPSSTRITYVQSAGGHALPLGTSPASSQAGTvtsy 1941
Cdd:cd22553   209 --LQPQQLAQ--------VSSQG---YIQQIPANASqqQPQMVqQGPNQSGQIIGQVASASSIQAAAIPLTVYTGA---- 271

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1942 gptsSVALGFTSLGPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLPpacAAPGGPVITAFYSGSP 2008
Cdd:cd22553   272 ----LAGQNGSNQQQVGQIVTSPIQGMTQGLTAPASSSIPTVVQQQAI---QGNPLPPGTQIIAAGQ 331
DUF5585 pfam17823
Family of unknown function (DUF5585); This is a family of unknown function found in chordata.
 1910-2177 6.84e-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: 41.48  E-value: 6.84e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1910 STRITYVQSAGGHALPLGTSPASSQAGTVTSYGPTSSVALgfTSLGPSGPAFVQPLLSGQAPLLAPGQVGVSPVPSPQLP 1989
Cdd:pfam17823   98 SEPATREGAADGAASRALAAAASSSPSSAAQSLPAAIAAL--PSEAFSAPRAAACRANASAAPRAAIAAASAPHAASPAP 175

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  1990 PAcAAPGGPVITAFYSGSPAPTSSAPLAQPSQAPPSLVYTVATSTTPPAATI----LPKGPPAPATATPAPTSPFPSATG 2065
Cdd:pfam17823  176 RT-AASSTTAASSTTAASSAPTTAASSAPATLTPARGISTAATATGHPAAGTalaaVGNSSPAAGTVTAAVGTVTPAALA 254

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589  2066 SM------------TYSLVAPKAQRPSP--KAPQKVKAAIASIPVGSFEAG-------------ASGRPGPAPRQplepg 2118
Cdd:pfam17823  255 TLaaaagtvasaagTINMGDPHARRLSPakHMPSDTMARNPAAPMGAQAQGpiiqvstdqpvhnTAGEPTPSPSN----- 329

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 768007589  2119 PVREPTAPESeLEGQPTPPAPPPLPETWTPTARSSPPLPPPAEERTSAKGPETMASKFP 2177
Cdd:pfam17823  330 TTLEPNTPKS-VASTNLAVVTTTKAQAKEPSASPVPVLHTSMIPEVEATSPTTQPSPLL 387
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
1779-1989 8.10e-03

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 41.28  E-value: 8.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1779 TSTNGKVLAATAPTPGIPILQSVPSAPPPkaqsvSPVQAPPPGGSAQLLPGKVLVPLAAPSMSVRG-GGAGQPLPLVSPP 1857
Cdd:COG3469     2 SSVSTAASPTAGGASATAVTLLGAAATAA-----SVTLTAATATTVVSTTGSVVVAASGSAGSGTGtTAASSTAATSSTT 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 768007589 1858 FSVPVQNGAQPPSKIIQLTPVPVSTPSGLVPPLSPATLPGPTSQPQKVLLPSSTRITYVQSAGGHALPLGTSPASSQAGT 1937
Cdd:COG3469    77 STTATATAAAAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGT 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 768007589 1938 -VTSYGPTSSVALGFTSLGPSGPAFVQ----PLLSGQAPLLAPGQVGVSPVPSPQLP 1989
Cdd:COG3469   157 eTATGGTTTTSTTTTTTSASTTPSATTtataTTASGATTPSATTTATTTGPPTPGLP 213
HMG-box_TOX-like cd21995
high mobility group (HMG)-box found in the TOX high mobility group box family; The TOX family ...
 1110-1172 9.56e-03

high mobility group (HMG)-box found in the TOX high mobility group box family; The TOX family includes four members: TOX, TOX2, TOX3 and TOX4. TOX, also called thymus high mobility group box protein TOX, is a transcriptional regulator with a major role in neural stem cell commitment and corticogenesis as well as in lymphoid cell development and lymphoid tissue organogenesis. It binds to GC-rich DNA sequences in the proximity of transcription start sites and may alter chromatin structure, modifying access of transcription factors to DNA. TOX2, also called granulosa cell HMG box protein 1 (GCX-1), is a putative transcriptional activator involved in the hypothalamic-pituitary-gonadal system. TOX3, also called CAG trinucleotide repeat-containing gene F9 protein (CAGF9), or trinucleotide repeat-containing gene 9 protein (TNRC9), is a transcriptional coactivator of the p300/CBP-mediated transcription complex. It activates transactivation through cAMP response element (CRE) sites. It protects against cell death by inducing anti-apoptotic and repressing pro-apoptotic transcripts. TOX4, also called epidermal Langerhans cell protein LCP1, is a component of the PTW/PP1 phosphatase complex, which plays a role in the control of chromatin structure and cell cycle progression during the transition from mitosis into interphase. All family members contain one HMG-box domain.


Pssm-ID: 438811 [Multi-domain]  Cd Length: 70  Bit Score: 37.07  E-value: 9.56e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 768007589 1110 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 1172
Cdd:cd21995     1 QKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDSLDEEQKQVYKKKTEAAKKEYLKA 63
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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