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Conserved domains on  [gi|1720424186|ref|XP_030098851|]
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protein capicua homolog isoform X9 [Mus musculus]

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 ...
 44-121 1.28e-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: 1.28e-59
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 121
Cdd:cd21990      1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 609-1110 2.30e-13

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 75.75  E-value: 2.30e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  609 GTPGYGAPASPAVQFIAQGAPGsatPAGSGASTgsgPNGPVPLGILQPGALGKAGGITQVQYILPTLPQQLQVAPAPAPA 688
Cdd:PHA03247  2476 GAPVYRRPAEARFPFAAGAAPD---PGGGGPPD---PDAPPAPSRLAPAILPDEPVGEPVHPRMLTWIRGLEELASDDAG 2549

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  689 PGTKAAAPSGPAPTTSIRFTLP-PGTSTNGKVLAATAPTAGIPILQSVPSAP-PPKAQSVSPVQATPSGGSAQLLPGKVL 766
Cdd:PHA03247  2550 DPPPPLPPAAPPAAPDRSVPPPrPAPRPSEPAVTSRARRPDAPPQSARPRAPvDDRGDPRGPAPPSPLPPDTHAPDPPPP 2629

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  767 VPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATM-----------PGPTSQ 835
Cdd:PHA03247  2630 SPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVgsltsladpppPPPTPE 2709

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  836 PQKVLLPSSTRITYVQSAGGHTLPlgtssacsqtgtvtsygptssvALGFTSLGPSGPAfvQPLLSAGQAPLLAPGQVGV 915
Cdd:PHA03247  2710 PAPHALVSATPLPPGPAAARQASP----------------------ALPAAPAPPAVPA--GPATPGGPARPARPPTTAG 2765

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  916 SPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFP 995
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGP 2845

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  996 SATGSMTYSLVAPK---AQRPSPKAPQKVKAAIASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPA 1072
Cdd:PHA03247  2846 PPPSLPLGGSVAPGgdvRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPP 2925

                          490       500       510
                   ....*....|....*....|....*....|....*...
gi 1720424186 1073 PPPPTETWPPTARSSPPPPlPAEERPGTKGPETASKFP 1110
Cdd:PHA03247  2926 PPQPQPPPPPPPRPQPPLA-PTTDPAGAGEPSGAVPQP 2962
NHP6B super family cl26372
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
1-160 2.02e-07

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


The actual alignment was detected with superfamily member COG5648:

Pssm-ID: 227935 [Multi-domain]  Cd Length: 211  Bit Score: 53.33  E-value: 2.02e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186    1 MSPEIQL--PLPPG-----KRRTQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNR 73
Cdd:COG5648     28 MSGIRQLhtTLVELekplqQLLTKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFG 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   74 TVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPASLGLAGGHKETRERSMSETG--- 149
Cdd:COG5648    100 EVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlve 173

                          170
                   ....*....|..
gi 1720424186  150 -TAAAPGVSSEL 160
Cdd:COG5648    174 eTKIISKAWSEL 185
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 917-1402 2.73e-03

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 42.62  E-value: 2.73e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  917 PVPSPQLPPACTASGGPVITAFYPGSPAPTSA---PLGPPSQAPPSlvytvatstTPPAATILPKGPPASATATPAPTSP 993
Cdd:PHA03247  2554 PLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRarrPDAPPQSARPR---------APVDDRGDPRGPAPPSPLPPDTHAP 2624

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  994 FPSatgsmtyslvaPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRPgSTPRQSSDSGVAREPAAPEselegQPTPPAP 1073
Cdd:PHA03247  2625 DPP-----------PPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPP-----QRPRRRA 2687

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1074 PPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSSDWRVPGLGLE----SRGEPPTPPSPAPATGPSGSSSGSS 1149
Cdd:PHA03247  2688 ARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAApappAVPAGPATPGGPARPARPPTTAGPP 2767

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1150 EGSSGRAAGDTPERKEVTSSGKKMKVRPPPLKKTFDSVDNRVlseVDFEERFAELPEFRPEEVLPSPTLQSLATSPRAil 1229
Cdd:PHA03247  2768 APAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPA---AVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-- 2842

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1230 gsyrkkrKNSTDLDSAPEDPTSPKRKMRRRSSCSSEPNTPKSAKcegdiftfdrtgtetedvlgeleyeKVPYSSLRRTL 1309
Cdd:PHA03247  2843 -------PGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPA-------------------------RPPVRRLARPA 2890

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1310 DQRRALVMQLFQDHgffPSAQATAAFQARyadifpskvclqlkirevrqkimqaATPTEQPPGAEAPLPGPPPTGMAATP 1389
Cdd:PHA03247  2891 VSRSTESFALPPDQ---PERPPQPQAPPP-------------------------PQPQPQPPPPPQPQPPPPPPPRPQPP 2942

                          490
                   ....*....|....
gi 1720424186 1390 V-PTPSPAGGPDPT 1402
Cdd:PHA03247  2943 LaPTTDPAGAGEPS 2956
 
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 ...
 44-121 1.28e-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: 1.28e-59
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 121
Cdd:cd21990      1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
HMG smart00398
high mobility group;
44-113 5.52e-19

high mobility group;


Pssm-ID: 197700 [Multi-domain]  Cd Length: 70  Bit Score: 82.36  E-value: 5.52e-19
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186    44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
Cdd:smart00398    1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70
HMG_box pfam00505
HMG (high mobility group) box;
45-112 1.48e-17

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 78.04  E-value: 1.48e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 112
Cdd:pfam00505    1 PKRPMSAFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAEKEKARYEKEHPEY 68
PHA03247 PHA03247
large tegument protein UL36; Provisional
 609-1110 2.30e-13

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 75.75  E-value: 2.30e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  609 GTPGYGAPASPAVQFIAQGAPGsatPAGSGASTgsgPNGPVPLGILQPGALGKAGGITQVQYILPTLPQQLQVAPAPAPA 688
Cdd:PHA03247  2476 GAPVYRRPAEARFPFAAGAAPD---PGGGGPPD---PDAPPAPSRLAPAILPDEPVGEPVHPRMLTWIRGLEELASDDAG 2549

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  689 PGTKAAAPSGPAPTTSIRFTLP-PGTSTNGKVLAATAPTAGIPILQSVPSAP-PPKAQSVSPVQATPSGGSAQLLPGKVL 766
Cdd:PHA03247  2550 DPPPPLPPAAPPAAPDRSVPPPrPAPRPSEPAVTSRARRPDAPPQSARPRAPvDDRGDPRGPAPPSPLPPDTHAPDPPPP 2629

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  767 VPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATM-----------PGPTSQ 835
Cdd:PHA03247  2630 SPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVgsltsladpppPPPTPE 2709

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  836 PQKVLLPSSTRITYVQSAGGHTLPlgtssacsqtgtvtsygptssvALGFTSLGPSGPAfvQPLLSAGQAPLLAPGQVGV 915
Cdd:PHA03247  2710 PAPHALVSATPLPPGPAAARQASP----------------------ALPAAPAPPAVPA--GPATPGGPARPARPPTTAG 2765

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  916 SPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFP 995
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGP 2845

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  996 SATGSMTYSLVAPK---AQRPSPKAPQKVKAAIASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPA 1072
Cdd:PHA03247  2846 PPPSLPLGGSVAPGgdvRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPP 2925

                          490       500       510
                   ....*....|....*....|....*....|....*...
gi 1720424186 1073 PPPPTETWPPTARSSPPPPlPAEERPGTKGPETASKFP 1110
Cdd:PHA03247  2926 PPQPQPPPPPPPRPQPPLA-PTTDPAGAGEPSGAVPQP 2962
NHP6B COG5648
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
1-160 2.02e-07

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


Pssm-ID: 227935 [Multi-domain]  Cd Length: 211  Bit Score: 53.33  E-value: 2.02e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186    1 MSPEIQL--PLPPG-----KRRTQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNR 73
Cdd:COG5648     28 MSGIRQLhtTLVELekplqQLLTKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFG 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   74 TVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPASLGLAGGHKETRERSMSETG--- 149
Cdd:COG5648    100 EVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlve 173

                          170
                   ....*....|..
gi 1720424186  150 -TAAAPGVSSEL 160
Cdd:COG5648    174 eTKIISKAWSEL 185
PTZ00199 PTZ00199
high mobility group protein; Provisional
 28-102 5.26e-07

high mobility group protein; Provisional


Pssm-ID: 185511 [Multi-domain]  Cd Length: 94  Bit Score: 49.08  E-value: 5.26e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   28 SSSEKDGRSPNKREKDHI--RRPMNAFMIFSKRHRALVHQRHPN--QDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 102
Cdd:PTZ00199     4 KQGKVLVRKNKRKKKDPNapKRALSAYMFFAKEKRAEIIAENPElaKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
813-1021 9.59e-06

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 50.14  E-value: 9.59e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  813 PVSTPSGLVPPLSPATMPGPTSQPQKVL-LPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPS 891
Cdd:COG3469     11 TAGGASATAVTLLGAAATAASVTLTAATaTTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAAT 90

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  892 GPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPP 971
Cdd:COG3469     91 STSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTT 170

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1720424186  972 AATILPKGPPASATATPAPTSPFPSATGSMTyslvAPKAQRPSPKAPQKV 1021
Cdd:COG3469    171 TTTSASTTPSATTTATATTASGATTPSATTT----ATTTGPPTPGLPKHV 216
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 721-1091 3.99e-05

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: 48.22  E-value: 3.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  721 AATAPTAGIPILQSVPSAPPPKAQSVSPVQATPsggsAQLLPGKVLVPLAAPSMSVRGGGAGQPlPLVSSPFSvPVQnGA 800
Cdd:pfam03154  180 AASPPSPPPPGTTQAATAGPTPSAPSVPPQGSP----ATSQPPNQTQSTAAPHTLIQQTPTLHP-QRLPSPHP-PLQ-PM 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  801 QQPSKIIQLTPVPVSTPS--GLVPPLSPATMPGPTSQPQKVllPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPT 878
Cdd:pfam03154  253 TQPPPPSQVSPQPLPQPSlhGQMPPMPHSLQTGPSHMQHPV--PPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPS 330

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  879 SSvalgftSLGPSGPAFVQPLlsaGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGS------PAPTSAPLG- 951
Cdd:pfam03154  331 QS------QLQSQQPPREQPL---PPAPLSMPHIKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQmnsnlpPPPALKPLSs 401

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  952 -----PPSQAPPSLVYTVATSTTPPAatilPKGPP--ASATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAA 1024
Cdd:pfam03154  402 lsthhPPSAHPPPLQLMPQSQQLPPP----PAQPPvlTQSQSLPPPAASHPPTSGLHQVPSQSPFPQHPFVPGGPPPITP 477

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186 1025 IASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPP 1091
Cdd:pfam03154  478 PSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCPLPPVQIKEEALDEAEEPESPPPPPRSPSPEP 544
PHA03247 PHA03247
large tegument protein UL36; Provisional
 917-1402 2.73e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 42.62  E-value: 2.73e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  917 PVPSPQLPPACTASGGPVITAFYPGSPAPTSA---PLGPPSQAPPSlvytvatstTPPAATILPKGPPASATATPAPTSP 993
Cdd:PHA03247  2554 PLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRarrPDAPPQSARPR---------APVDDRGDPRGPAPPSPLPPDTHAP 2624

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  994 FPSatgsmtyslvaPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRPgSTPRQSSDSGVAREPAAPEselegQPTPPAP 1073
Cdd:PHA03247  2625 DPP-----------PPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPP-----QRPRRRA 2687

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1074 PPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSSDWRVPGLGLE----SRGEPPTPPSPAPATGPSGSSSGSS 1149
Cdd:PHA03247  2688 ARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAApappAVPAGPATPGGPARPARPPTTAGPP 2767

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1150 EGSSGRAAGDTPERKEVTSSGKKMKVRPPPLKKTFDSVDNRVlseVDFEERFAELPEFRPEEVLPSPTLQSLATSPRAil 1229
Cdd:PHA03247  2768 APAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPA---AVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-- 2842

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1230 gsyrkkrKNSTDLDSAPEDPTSPKRKMRRRSSCSSEPNTPKSAKcegdiftfdrtgtetedvlgeleyeKVPYSSLRRTL 1309
Cdd:PHA03247  2843 -------PGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPA-------------------------RPPVRRLARPA 2890

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1310 DQRRALVMQLFQDHgffPSAQATAAFQARyadifpskvclqlkirevrqkimqaATPTEQPPGAEAPLPGPPPTGMAATP 1389
Cdd:PHA03247  2891 VSRSTESFALPPDQ---PERPPQPQAPPP-------------------------PQPQPQPPPPPQPQPPPPPPPRPQPP 2942

                          490
                   ....*....|....
gi 1720424186 1390 V-PTPSPAGGPDPT 1402
Cdd:PHA03247  2943 LaPTTDPAGAGEPS 2956
rad23 TIGR00601
UV excision repair protein Rad23; All proteins in this family for which functions are known ...
 942-1000 8.98e-03

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


Pssm-ID: 273167 [Multi-domain]  Cd Length: 378  Bit Score: 40.26  E-value: 8.98e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186  942 SPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFPSATGS 1000
Cdd:TIGR00601   84 VAPPAATPTSAPTPTPSPPASPASGMSAAPASAVEEKSPSEESATATAPESPSTSVPSS 142
 
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 ...
 44-121 1.28e-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: 1.28e-59
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 121
Cdd:cd21990      1 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPEEKQKYHDLAFQVKEAHFKAHPDWKWCSKDRKK 78
HMG-box_HBP2 cd21989
high mobility group (HMG)-box found in HMG box-containing protein 2 (HBP2) and similar ...
 46-114 2.57e-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: 2.57e-34
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 114
Cdd:cd21989      1 RRPMNAFLLFCKRHRSLVRERHPRLDNRGITKILGDWWAVLDPDEKQKYTDLAKQYKEAFMKANPNFKW 69
HMG-box_SOX cd22004
high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family ...
 44-117 1.57e-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: 1.57e-22
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNK 117
Cdd:cd22004      1 HIKRPMNAFMVWSQQERKKIAKQNPKLHNSEISKILGKEWKKLTEEEKRPYVEEAERLREEHKKEYPDYKYRPR 74
HMG-box_ROX1-like cd01389
high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar ...
 45-113 3.99e-22

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: 91.49  E-value: 3.99e-22
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
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 ...
 44-115 1.54e-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: 87.09  E-value: 1.54e-20
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWC 115
Cdd:cd22033      1 HIKRPMNAFMVWARIHRPALAKANPNANNADISVQLGEEWNKLTEEQKKPYYDEAQKLKEQHRKEHPGWVYQ 72
HMG smart00398
high mobility group;
44-113 5.52e-19

high mobility group;


Pssm-ID: 197700 [Multi-domain]  Cd Length: 70  Bit Score: 82.36  E-value: 5.52e-19
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186    44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
Cdd:smart00398    1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70
HMG-box_HBP1 cd21988
high mobility group (HMG)-box found in HMG box-containing protein 1 (HBP1) and similar ...
 46-113 1.12e-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: 1.12e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPD-WK 113
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 ...
 44-121 1.24e-18

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


Pssm-ID: 438837 [Multi-domain]  Cd Length: 76  Bit Score: 81.63  E-value: 1.24e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 121
Cdd:cd22028      1 RVKRPMNAFMVWSREQRRKIAQENPKMHNSEISKRLGAEWKQLSEDEKRPFIDEAKRLRAQHMKEHPDYKY--RPRRK 76
HMG_box pfam00505
HMG (high mobility group) box;
45-112 1.48e-17

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 78.04  E-value: 1.48e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 112
Cdd:pfam00505    1 PKRPMSAFFLFSKEQRAKLKAENPGLKNAEISKILGEKWKALSEEEKKPYEEKAEKEKARYEKEHPEY 68
HMG-box_EGL13-like cd22042
high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 ...
 44-114 2.41e-17

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


Pssm-ID: 438848 [Multi-domain]  Cd Length: 78  Bit Score: 78.02  E-value: 2.41e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 114
Cdd:cd22042      2 HIKRPMNAFMVWAKDERRKILKACPDMHNSNISKILGAKWKAMSNAEKQPYYEEQSRLSKLHMEKHPDYRY 72
HMG-box_SF cd00084
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ...
 47-105 1.59e-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: 1.59e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 105
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) ...
 43-124 2.74e-16

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: 74.94  E-value: 2.74e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   43 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 122
Cdd:cd01388      1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSEAEKRPFIDEAKRLRALHMKEHPDYKY--RPRRKT 78


                   ..
gi 1720424186  123 SS 124
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) ...
 44-121 1.51e-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: 72.73  E-value: 1.51e-15
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 121
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) ...
 44-114 2.34e-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: 72.04  E-value: 2.34e-15
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 114
Cdd:cd22031      1 HVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLSESEKRPFIEEAERLRVQHKKDHPDYKY 71
HMG-box_SoxF cd22032
high mobility group (HMG)-box found in group F SRY-related high-mobility group (HMG) box (Sox) ...
 44-114 6.53e-15

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: 70.91  E-value: 6.53e-15
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 114
Cdd:cd22032      1 RIRRPMNAFMVWAKDERKRLADENPDLHNAELSKMLGKKWKSLSLAEKRPFVEEAERLRVQHMQDYPNYKY 71
HMG-box_TCF7-like cd21996
high mobility group (HMG)-box found in the transcription factor 7 (TCF-7)-like family; The ...
 44-121 1.34e-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: 1.34e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK-----WCNKD 118
Cdd:cd21996      1 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSardnyGKKKK 80


                   ...
gi 1720424186  119 RKK 121
Cdd:cd21996     81 RKR 83
HMG-box_SoxF_SOX7 cd22046
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 7 (SOX7) and similar ...
 35-121 3.35e-14

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: 69.33  E-value: 3.35e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   35 RSP-NKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
Cdd:cd22046      1 RSPgEKGSEPRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGKSWKALTPSQKRPYVEEAERLRVQHMQDYPNYK 80


                   ....*...
gi 1720424186  114 WCNKDRKK 121
Cdd:cd22046     81 YRPRRKKQ 88
HMG-box_SoxC cd22029
high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) ...
 44-121 3.79e-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: 3.79e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 121
Cdd:cd22029      1 HIKRPMNAFMVWSQIERRKIMEQQPDMHNAEISKRLGKRWKLLSDSEKIPFIEEAERLRLLHMQEYPDYKY--RPRKK 76
HMG-box_SoxF_SOX18 cd22048
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 18 (SOX18) and ...
 45-121 3.88e-14

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: 68.94  E-value: 3.88e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 121
Cdd:cd22048      4 IRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGQSWKSLSAAEKRPFVEEAERLRVQHLQDHPNYKYRPRRKKQ 80
PHA03247 PHA03247
large tegument protein UL36; Provisional
 609-1110 2.30e-13

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 75.75  E-value: 2.30e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  609 GTPGYGAPASPAVQFIAQGAPGsatPAGSGASTgsgPNGPVPLGILQPGALGKAGGITQVQYILPTLPQQLQVAPAPAPA 688
Cdd:PHA03247  2476 GAPVYRRPAEARFPFAAGAAPD---PGGGGPPD---PDAPPAPSRLAPAILPDEPVGEPVHPRMLTWIRGLEELASDDAG 2549

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  689 PGTKAAAPSGPAPTTSIRFTLP-PGTSTNGKVLAATAPTAGIPILQSVPSAP-PPKAQSVSPVQATPSGGSAQLLPGKVL 766
Cdd:PHA03247  2550 DPPPPLPPAAPPAAPDRSVPPPrPAPRPSEPAVTSRARRPDAPPQSARPRAPvDDRGDPRGPAPPSPLPPDTHAPDPPPP 2629

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  767 VPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATM-----------PGPTSQ 835
Cdd:PHA03247  2630 SPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVgsltsladpppPPPTPE 2709

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  836 PQKVLLPSSTRITYVQSAGGHTLPlgtssacsqtgtvtsygptssvALGFTSLGPSGPAfvQPLLSAGQAPLLAPGQVGV 915
Cdd:PHA03247  2710 PAPHALVSATPLPPGPAAARQASP----------------------ALPAAPAPPAVPA--GPATPGGPARPARPPTTAG 2765

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  916 SPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFP 995
Cdd:PHA03247  2766 PPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGP 2845

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  996 SATGSMTYSLVAPK---AQRPSPKAPQKVKAAIASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPA 1072
Cdd:PHA03247  2846 PPPSLPLGGSVAPGgdvRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPP 2925

                          490       500       510
                   ....*....|....*....|....*....|....*...
gi 1720424186 1073 PPPPTETWPPTARSSPPPPlPAEERPGTKGPETASKFP 1110
Cdd:PHA03247  2926 PPQPQPPPPPPPRPQPPLA-PTTDPAGAGEPSGAVPQP 2962
HMG-box_SoxF_SOX17 cd22047
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and ...
 45-114 2.59e-13

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: 66.65  E-value: 2.59e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKW 114
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 ...
 43-122 5.33e-13

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: 65.87  E-value: 5.33e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   43 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKKS 122
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 ...
 39-122 2.66e-11

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: 61.23  E-value: 2.66e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   39 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKD 118
Cdd:cd22038      6 KTPSGHIKRPMNAFMVWSQIERRKIMEQWPDMHNAEISKRLGRRWKLLQDYEKIPFIKEAERLRLKHMADYPDYKY--RP 83


                   ....
gi 1720424186  119 RKKS 122
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 ...
 42-121 2.07e-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: 58.49  E-value: 2.07e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   42 KDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKDRKK 121
Cdd:cd22034      2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAK 81
HMG-box_NHP6-like cd01390
high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone chromosomal ...
 32-105 2.45e-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: 58.15  E-value: 2.45e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720424186   32 KDGRSPNKREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 105
Cdd:cd01390      1 KKKKGRKKKDPNAPKRGLSAYMFFSQDNREKVKEENPDATFGEVGKLLGEKWKELSEEEKAPYEEKAAKDKKRY 74
HMG-box_SoxC_SOX4 cd22036
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar ...
 44-121 3.85e-10

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: 57.45  E-value: 3.85e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   44 HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWcnKDRKK 121
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 ...
 39-124 5.10e-10

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: 57.80  E-value: 5.10e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   39 KREKDHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWKWCNKD 118
Cdd:cd22037      6 KTATGHIKRPMNAFMVWSKIERRKIMEQSPDMHNAEISKRLGKRWKMLKDSEKIPFIREAERLRLKHMADYPDYKYRPRK 85


                   ....*.
gi 1720424186  119 RKKSSS 124
Cdd:cd22037     86 KPKVDP 91
HMG-box_SSRP1-like cd21994
high mobility group (HMG)-box found in structure-specific recognition protein 1 (SSRP1) and ...
 47-113 7.89e-09

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: 7.89e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
Cdd:cd21994      1 RPMSAYMLWLNENREKIKKENPGISVTEISKKAGEIWKELDEEDKEKWEQKAEKAKERYDKAMKEYK 67
HMG-box_HMG20 cd21980
high mobility group (HMG)-box found in the high mobility group protein 20 (HMG20) subfamily; ...
 46-103 1.03e-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: 1.03e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 103
Cdd:cd21980      3 KAPLTGYVRFLNERREKLRAENPDLSFPEITKILGAEWSSLSAEEKQKYLDEAEKDKE 60
HMG-box_ABF2_IXR1-like_rpt2 cd22012
second high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...
 47-96 3.19e-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: 51.52  E-value: 3.19e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 96
Cdd:cd22012      4 RPASAYFLFAKEVRPKLKEENPNEKYTDITKLISEKWRSLDESEKEPYQE 53
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 721-1098 4.70e-08

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 57.69  E-value: 4.70e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  721 AATAPTAGIPILQSVPSAPPPKAQSVSPvQATPSGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGA 800
Cdd:PRK07764   402 AAAAPAAAPAPAAAAPAAAAAPAPAAAP-QPAPAPAPAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAP 480

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  801 QQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVL--LPSSTRIT------YVQSAG--GHTLPLGTSS-----A 865
Cdd:PRK07764   481 APAPPAAPAPAAAPAAPAAPAAPAGADDAATLRERWPEILaaVPKRSRKTwaillpEATVLGvrGDTLVLGFSTgglarR 560

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  866 CSQTGTVTSY------------GPTSSVALGFTSLGPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTASGGP 933
Cdd:PRK07764   561 FASPGNAEVLvtalaeelggdwQVEAVVGPAPGAAGGEGPPAPASSGPPEEAA--RPAAPAAPAAPAAPAPAGAAAAPAE 638

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  934 VITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAatilpkgpPASATATPAPTSPFPSATGSMTYSLVAPKAQRP 1013
Cdd:PRK07764   639 ASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAA--------PAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPP 710

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1014 SPKAPQKVKAAiasipvgsfesgTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLP 1093
Cdd:PRK07764   711 AGQADDPAAQP------------PQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSP 778


                   ....*
gi 1720424186 1094 AEERP 1098
Cdd:PRK07764   779 PSEEE 783
HMG-box_AtHMGB6-like_rpt1 cd22006
first high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 46-107 8.33e-08

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: 8.33e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 107
Cdd:cd22006      1 KKPKTAYFLWCKDQREEVKKENPNADFSEVSKILGAKWKNLSEEEKKPYEEKYKEEKEKYLK 62
NHP6B COG5648
Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics];
1-160 2.02e-07

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


Pssm-ID: 227935 [Multi-domain]  Cd Length: 211  Bit Score: 53.33  E-value: 2.02e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186    1 MSPEIQL--PLPPG-----KRRTQSLSALPKERDSSSEKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNR 73
Cdd:COG5648     28 MSGIRQLhtTLVELekplqQLLTKPRKKTKSKRLVRKKKDPNGP--------KRPLSAYFLYSAENRDEIRKENPKLTFG 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   74 TVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA-HPDwkwcnkDRKKSSSEAKPASLGLAGGHKETRERSMSETG--- 149
Cdd:COG5648    100 EVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREkEEY------NKKLPNKAPIGPFIENEPKIRPKVEGPSPDKAlve 173

                          170
                   ....*....|..
gi 1720424186  150 -TAAAPGVSSEL 160
Cdd:COG5648    174 eTKIISKAWSEL 185
HMG-box_AtHMGB6-like_rpt3 cd22008
third high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 37-108 2.56e-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: 49.57  E-value: 2.56e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   37 PNKREKdhirrPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 108
Cdd:cd22008      7 PNKPKK-----PASSYLLFGKEYRKKLQEERPGANNATVTALISLKWKELGEEEKQVYNDKAAVLMEKYKKE 73
HMG-box_HMGB_rpt2 cd21979
second high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; ...
 46-107 2.73e-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: 49.33  E-value: 2.73e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 107
Cdd:cd21979      4 KRPPSAFFLFCSEHRPKIKGEHPGLSIGDVAKKLGEMWNNTSAKDKQPYEKKAAKLKEKYEK 65
PTZ00199 PTZ00199
high mobility group protein; Provisional
 28-102 5.26e-07

high mobility group protein; Provisional


Pssm-ID: 185511 [Multi-domain]  Cd Length: 94  Bit Score: 49.08  E-value: 5.26e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186   28 SSSEKDGRSPNKREKDHI--RRPMNAFMIFSKRHRALVHQRHPN--QDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 102
Cdd:PTZ00199     4 KQGKVLVRKNKRKKKDPNapKRALSAYMFFAKEKRAEIIAENPElaKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK 82
HMG-box_ABF2-like_rpt1 cd22010
first high mobility group (HMG)-box found in Saccharomyces cerevisiae mitochondrial ...
 46-112 7.48e-07

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: 7.48e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 112
Cdd:cd22010      2 KRPLSAYFLYFQEHRSDFVKENPDAKMTEISKIGGDKWKNLSADDKKKYEDDFQRELSEYQKAKAEF 68
HMG_box_2 pfam09011
HMG-box domain; This short 71 residue domain is an HMG-box domain. HMG-box domains mediate ...
 37-112 2.38e-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: 46.63  E-value: 2.38e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720424186   37 PNKRekdhiRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDW 112
Cdd:pfam09011    1 PNKP-----KRARNAYAFFVQEMIPEHKRQNPVIGFAEVSKLCSERWKNLSEEEKEKYEEMAKEDKNRYDREMGTY 71
HMG-box_AtHMGB6-like_rpt2 cd22007
second high mobility group (HMG)-box found in Arabidopsis thaliana high mobility group B ...
 46-108 4.75e-06

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


Pssm-ID: 438823 [Multi-domain]  Cd Length: 68  Bit Score: 45.71  E-value: 4.75e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 108
Cdd:cd22007      2 KRPQSAYFLYANDRRAALKEENKNVKITEIAKMLGAEWKNLSDAKKKPYEEKAKKLKEAYLQE 64
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 699-1064 5.60e-06

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 51.33  E-value: 5.60e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  699 PAPTTSIRFTLPPGTSTNGKVLAATAPTAGIPilqSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPSMSVRG 778
Cdd:PHA03307    80 PANESRSTPTWSLSTLAPASPAREGSPTPPGP---SSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAG 156

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  779 GGAGQ-PLPLVSSPFSVPVQNGAQQPSKiiqltpvPVSTPSGLVPPLSPATMPGPTSQPqkvllPSSTRITYVQSAGGHT 857
Cdd:PHA03307   157 ASPAAvASDAASSRQAALPLSSPEETAR-------APSSPPAEPPPSTPPAAASPRPPR-----RSSPISASASSPAPAP 224

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  858 LPLGTSSACSQTGTVTSYGPTSSvALGFTSLGPSGPAFVQPLLSagqAPLLAPGQVGVSPVPSPQLPPACTASGGPVITA 937
Cdd:PHA03307   225 GRSAADDAGASSSDSSSSESSGC-GWGPENECPLPRPAPITLPT---RIWEASGWNGPSSRPGPASSSSSPRERSPSPSP 300

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  938 FYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFPSATGSMTYSLVAPKAQRPSP-- 1015
Cdd:PHA03307   301 SSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRPRPSRAPSSPaa 380

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1720424186 1016 ----KAPQKVKAAIASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESEL 1064
Cdd:PHA03307   381 sagrPTRRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASGAFYARYPLL 433
HMG-box_UBF1_rpt4 cd22001
fourth high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ...
 43-103 6.01e-06

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: 45.37  E-value: 6.01e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186   43 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 103
Cdd:cd22001      1 EKPKRPISAMFIYSKEKRSKLKKKHPELSEQELTRLLAKKYNELPDKKKAKYKKKEALAKA 61
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
813-1021 9.59e-06

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 50.14  E-value: 9.59e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  813 PVSTPSGLVPPLSPATMPGPTSQPQKVL-LPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPS 891
Cdd:COG3469     11 TAGGASATAVTLLGAAATAASVTLTAATaTTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTATATAAAAAAT 90

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  892 GPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPP 971
Cdd:COG3469     91 STSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATGGTTTTSTTT 170

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1720424186  972 AATILPKGPPASATATPAPTSPFPSATGSMTyslvAPKAQRPSPKAPQKV 1021
Cdd:COG3469    171 TTTSASTTPSATTTATATTASGATTPSATTT----ATTTGPPTPGLPKHV 216
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
902-1127 1.07e-05

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 50.26  E-value: 1.07e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  902 AGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPP 981
Cdd:PRK12323   372 AGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPAPA 451

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  982 ASATATPAPTSPfPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIA---------SIPVGSFESGTTGRPGSTPRQSSDSG 1052
Cdd:PRK12323   452 PAPAAAPAAAAR-PAAAGPRPVAAAAAAAPARAAPAAAPAPADDDpppweelppEFASPAPAQPDAAPAGWVAESIPDPA 530

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720424186 1053 VAREPAAPESELEGQPTPPAPPPPtetwpptarsSPPPPLPAEERPGTKGPETASKFPsssSDWRVPGLGLESRG 1127
Cdd:PRK12323   531 TADPDDAFETLAPAPAAAPAPRAA----------AATEPVVAPRPPRASASGLPDMFD---GDWPALAARLPVRG 592
HMG-box_NHP10-like cd22016
high mobility group (HMG)-box found in Saccharomyces cerevisiae non-histone protein 10 (NHP10) ...
 31-103 1.10e-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: 1.10e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   31 EKDGRSPnkrekdhiRRPMNAFMIFSKRHRALVHQR----HPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 103
Cdd:cd22016      2 EKDPNAP--------KRPANAFFLFCQEQREKVREEykeeHQEIDHHDLTKALAQAWRNLDAEDKKPYYELYEKDKE 70
HMG-box_PMS1 cd21985
high mobility group (HMG)-box found in PMS1 protein homolog 1 (PMS1) and similar proteins; ...
 45-105 1.54e-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: 44.46  E-value: 1.54e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 105
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 ...
 47-102 1.65e-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: 43.84  E-value: 1.65e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVK 102
Cdd:cd22005      2 RPPTAFFLFLADFRKTYKKKNPDKSVKAVGKAAGEKWKSMSDEEKAPYVEKAEKEK 57
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
 887-1049 2.54e-05

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 48.91  E-value: 2.54e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  887 SLGPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLG--PPSQAPPslvytv 964
Cdd:PRK14959   370 SLRPSGGGASAPSGSAAEGP--ASGGAATIPTPGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPrvPWDDAPP------ 441

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  965 atstTPPAATILPKGPPASATATPAPTSPFPSATGSMTY-SLVAPKAqrPSPKAPQKVKAAIASIPVGSFESGTTGRPGS 1043
Cdd:PRK14959   442 ----APPRSGIPPRPAPRMPEASPVPGAPDSVASASDAPpTLGDPSD--TAEHTPSGPRTWDGFLEFCQGRNGQGGRLAT 515


                   ....*.
gi 1720424186 1044 TPRQSS 1049
Cdd:PRK14959   516 VLRQAT 521
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 721-1091 3.99e-05

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: 48.22  E-value: 3.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  721 AATAPTAGIPILQSVPSAPPPKAQSVSPVQATPsggsAQLLPGKVLVPLAAPSMSVRGGGAGQPlPLVSSPFSvPVQnGA 800
Cdd:pfam03154  180 AASPPSPPPPGTTQAATAGPTPSAPSVPPQGSP----ATSQPPNQTQSTAAPHTLIQQTPTLHP-QRLPSPHP-PLQ-PM 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  801 QQPSKIIQLTPVPVSTPS--GLVPPLSPATMPGPTSQPQKVllPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPT 878
Cdd:pfam03154  253 TQPPPPSQVSPQPLPQPSlhGQMPPMPHSLQTGPSHMQHPV--PPQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPS 330

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  879 SSvalgftSLGPSGPAFVQPLlsaGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGS------PAPTSAPLG- 951
Cdd:pfam03154  331 QS------QLQSQQPPREQPL---PPAPLSMPHIKPPPTTPIPQLPNPQSHKHPPHLSGPSPFQmnsnlpPPPALKPLSs 401

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  952 -----PPSQAPPSLVYTVATSTTPPAatilPKGPP--ASATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAA 1024
Cdd:pfam03154  402 lsthhPPSAHPPPLQLMPQSQQLPPP----PAQPPvlTQSQSLPPPAASHPPTSGLHQVPSQSPFPQHPFVPGGPPPITP 477

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186 1025 IASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPP 1091
Cdd:pfam03154  478 PSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCPLPPVQIKEEALDEAEEPESPPPPPRSPSPEP 544
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
 901-1027 4.03e-05

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 48.27  E-value: 4.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  901 SAGQAPL-LAPGQVGVSPVPSPQLPPACTASGGPVitafypgspAPTSAPLGPPSQAPPSlvytvATSTTPPAATILPKG 979
Cdd:PRK14950   345 SYGQLPLeLAVIEALLVPVPAPQPAKPTAAAPSPV---------RPTPAPSTRPKAAAAA-----NIPPKEPVRETATPP 410

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1720424186  980 PPASATATPAPTSPFPSA---TGSMTYSLVAPKAQRPSPKaPQKVKAAIAS 1027
Cdd:PRK14950   411 PVPPRPVAPPVPHTPESApklTRAAIPVDEKPKYTPPAPP-KEEEKALIAD 460
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
775-998 5.59e-05

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 47.44  E-value: 5.59e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  775 SVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMP-GPTSQPQKVLLPSSTRITYVQSA 853
Cdd:COG3469      3 SVSTAASPTAGGASATAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGsGTGTTAASSTAATSSTTSTTATA 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  854 GGHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSpvpspqlppACTASGGP 933
Cdd:COG3469     83 TAAAAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAG---------STTTTTTV 153

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720424186  934 VITAFYPGSPAPTSAPLGPPSQAPPslvYTVATSTTPPAATilpkGPPASATATPAPTSPFPSAT 998
Cdd:COG3469    154 SGTETATGGTTTTSTTTTTTSASTT---PSATTTATATTAS----GATTPSATTTATTTGPPTPG 211
PHA03247 PHA03247
large tegument protein UL36; Provisional
 699-1091 6.30e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 48.01  E-value: 6.30e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  699 PAPTTSIRFT-LPPGTSTNGKVLAATA------PTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAA 771
Cdd:PHA03247  2710 PAPHALVSATpLPPGPAAARQASPALPaapappAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVA 2789

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  772 PSMSVRgggagQPLPLVSSPFSVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPtsqpqkvlLPSSTRITYVQ 851
Cdd:PHA03247  2790 SLSESR-----ESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGP--------PPPSLPLGGSV 2856

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  852 SAGGHTLPLGTSSACSQTGTVTSYGPTSSVALgfTSLGPSGPAFVQPLLSAGQAPLLAPGQvgvSPVPSPQLPPACTASG 931
Cdd:PHA03247  2857 APGGDVRRRPPSRSPAAKPAAPARPPVRRLAR--PAVSRSTESFALPPDQPERPPQPQAPP---PPQPQPQPPPPPQPQP 2931

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  932 GPVITAFYPGSPAPTSAPLGPPSQAP----PSLVYTVATSTTPPAATILPKGP--PASATATPAPTSPFPSATGSMTYSL 1005
Cdd:PHA03247  2932 PPPPPPRPQPPLAPTTDPAGAGEPSGavpqPWLGALVPGRVAVPRFRVPQPAPsrEAPASSTPPLTGHSLSRVSSWASSL 3011

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1006 VAPKAQRPSPKAPQKvkaaiasipvgsfesgTTGRPGSTPRQSSDSGVAREPAAPESElegqptPPAPPPPTETWPPTAR 1085
Cdd:PHA03247  3012 ALHEETDPPPVSLKQ----------------TLWPPDDTEDSDADSLFDSDSERSDLE------ALDPLPPEPHDPFAHE 3069


                   ....*.
gi 1720424186 1086 SSPPPP 1091
Cdd:PHA03247  3070 PDPATP 3075
HMG-box_HMGB_rpt1 cd21978
first high mobility group (HMG)-box found in the high mobility group protein B (HMGB) family; ...
 46-103 6.56e-05

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: 6.56e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQ--DNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 103
Cdd:cd21978      3 RGKMSSYAFFVQTCREEHKKKHPNEsvNFSEFSKKCSERWKTMSAKEKKKFEDMAKKDKA 62
HMG-box_BHMG1 cd21977
high mobility group (HMG)-box found in basic helix-loop-helix and HMG box domain-containing ...
 49-105 1.79e-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: 1.79e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   49 MNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAH 105
Cdd:cd21977      5 VNGFIMFCRLNRKNYIDKHPGLASTELTKELGQLWRELSAEEKKPYCVRARELSQLH 61
HMG-box_SMARCE1 cd21983
high mobility group (HMG)-box found in SWI/SNF-related matrix-associated actin-dependent ...
 47-96 2.97e-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: 2.97e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD 96
Cdd:cd21983      7 KPLMPYMRYSRKVWDQVKASNPDLKLWEIGKIIGQMWRELSDEEKQEYIE 56
PRK14971 PRK14971
DNA polymerase III subunit gamma/tau;
901-1033 3.10e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237874 [Multi-domain]  Cd Length: 614  Bit Score: 45.15  E-value: 3.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  901 SAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPlgPPSQAPPSL-VYTVATSTTPPAATILPKG 979
Cdd:PRK14971   370 SGGRGPKQHIKPVFTQPAAAPQPSAAAAASPSPSQSSAAAQPSAPQSAT--QPAGTPPTVsVDPPAAVPVNPPSTAPQAV 447

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1720424186  980 PPASAtatPAPTSPFPSATGSMTYSLVAPKaQRPSPKAPQKVKAAIASIPVGSF 1033
Cdd:PRK14971   448 RPAQF---KEEKKIPVSKVSSLGPSTLRPI-QEKAEQATGNIKEAPTGTQKEIF 497
PRK14971 PRK14971
DNA polymerase III subunit gamma/tau;
890-996 3.21e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237874 [Multi-domain]  Cd Length: 614  Bit Score: 45.15  E-value: 3.21e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  890 PSGPAFVQP----LLSAGQAPLLAPGQVGVSPvPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVY--- 962
Cdd:PRK14971   378 HIKPVFTQPaaapQPSAAAAASPSPSQSSAAA-QPSAPQSATQPAGTPPTVSVDPPAAVPVNPPSTAPQAVRPAQFKeek 456

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 1720424186  963 TVATSTTPPAA--TILPKGPPASATATPAPTSPFPS 996
Cdd:PRK14971   457 KIPVSKVSSLGpsTLRPIQEKAEQATGNIKEAPTGT 492
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
713-924 3.31e-04

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 45.13  E-value: 3.31e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  713 TSTNGKVLAATAPTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVLVPLAAPSMSVRGGGAGQPLPLVSSPF 792
Cdd:COG3469      2 SSVSTAASPTAGGASATAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTTAASSTAATSSTTSTTAT 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  793 SVPVQNGAQQPSKIIQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYVQSAGGHTLPLGTSSACSQTGTV 872
Cdd:COG3469     82 ATAAAAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTTTTTVSGTETATG 161

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1720424186  873 TSYGPTSSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLP 924
Cdd:COG3469    162 GTTTTSTTTTTTSASTTPSATTTATATTASGATTPSATTTATTTGPPTPGLP 213
HMG-box_PB1 cd21984
high mobility group (HMG)-box found in protein polybromo-1 (PB1) and similar proteins; PB1, ...
 46-103 3.47e-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: 3.47e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKE 103
Cdd:cd21984      1 KRNPSGYILFSSEVRKSIKAENPDYSFGEISRLVGTEWRNLPAEKKAEYEERAQKQAE 58
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 731-1107 3.64e-04

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: 45.14  E-value: 3.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  731 ILQSVPsaPPPKAQSVSPVQATPSGGSAQLLPGKVLVPlAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGAQQPSKIIQLT 810
Cdd:pfam03154  166 ILQTQP--PVLQAQSGAASPPSPPPPGTTQAATAGPTP-SAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQRL 242

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  811 PVPVstpsglvPPLSPATMPGPTSQPQKVLLPSSTRITYVQSaGGHTLPLGTSSacsqtgtvtsygptssvalgFTSLGP 890
Cdd:pfam03154  243 PSPH-------PPLQPMTQPPPPSQVSPQPLPQPSLHGQMPP-MPHSLQTGPSH--------------------MQHPVP 294

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  891 SGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAP-LGPPSQAPPSLVYTVATSTT 969
Cdd:pfam03154  295 PQPFPLTPQSSQSQVPPGPSPAAPGQSQQRIHTPPSQSQLQSQQPPREQPLPPAPLSMPhIKPPPTTPIPQLPNPQSHKH 374

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  970 PPAATI---------LPKGP---PASATATPAPTSPFPSATGSMTYS--LVAPKAQRPSPKAPQKVKAAIASIPvgsfes 1035
Cdd:pfam03154  375 PPHLSGpspfqmnsnLPPPPalkPLSSLSTHHPPSAHPPPLQLMPQSqqLPPPPAQPPVLTQSQSLPPPAASHP------ 448

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186 1036 gttgrpgstPRQSSDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGPETAS 1107
Cdd:pfam03154  449 ---------PTSGLHQVPSQSPFPQHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVS 511
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
889-1062 3.99e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 44.84  E-value: 3.99e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  889 GPSGPAFVQPLLSAGQAPllAPGQVGVSPVPSPQLPPACTASGGPVITAF-YPGSPAPTSAPLGPPSQAPPSLVYTVATS 967
Cdd:PRK07003   364 GGGAPGGGVPARVAGAVP--APGARAAAAVGASAVPAVTAVTGAAGAALApKAAAAAAATRAEAPPAAPAPPATADRGDD 441

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  968 TTP-PAATILPKGPPASATATPAPTSPFPSATGSMTyslVAPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRPGSTPR 1046
Cdd:PRK07003   442 AADgDAPVPAKANARASADSRCDERDAQPPADSGSA---SAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASR 518

                          170
                   ....*....|....*.
gi 1720424186 1047 qsSDSGVAREPAAPES 1062
Cdd:PRK07003   519 --EDAPAAAAPPAPEA 532
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
854-1054 4.34e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 44.87  E-value: 4.34e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  854 GGHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGP 933
Cdd:PRK12323   369 GGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAP 448

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  934 VITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATI-LPKGPP-----ASATATPAPTSPFPSATGSMTYSLVA 1007
Cdd:PRK12323   449 APAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPApADDDPPpweelPPEFASPAPAQPDAAPAGWVAESIPD 528

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 1720424186 1008 PKAQRPSPKAPQKVKAAIASiPVGSFESGTTGRPGSTPRQSSDSGVA 1054
Cdd:PRK12323   529 PATADPDDAFETLAPAPAAA-PAPRAAAATEPVVAPRPPRASASGLP 574
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 721-1104 6.31e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 44.21  E-value: 6.31e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  721 AATAPTAGIPILQSVPSAPPPKAQSVSPVQATPSGGSAQLlpgkvlvPLAAPSMSVRGGGAGQPLPLVSSPFSVPVQNGA 800
Cdd:PRK07764   397 AAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPA-------PAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPA 469

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  801 QQPSKiiQLTPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITY---VQSAGGHTLplGTSSACSQTGTVTSY-G 876
Cdd:PRK07764   470 PAAAP--EPTAAPAPAPPAAPAPAAAPAAPAAPAAPAGADDAATLRERWpeiLAAVPKRSR--KTWAILLPEATVLGVrG 545

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  877 PTssVALGFTSlGPSGPAFVQPllsaGQAPLLAP---GQVGVspvpspQLPPACTASGGPVITAFyPGSPAPTSAPLGPP 953
Cdd:PRK07764   546 DT--LVLGFST-GGLARRFASP----GNAEVLVTalaEELGG------DWQVEAVVGPAPGAAGG-EGPPAPASSGPPEE 611

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  954 SQAPPSlvytvATSTTPPAATILPKGPPASATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSF 1033
Cdd:PRK07764   612 AARPAA-----PAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPA 686

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186 1034 ESGTTGRPGSTPRQSSDSGVAREPAAPESelegQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGPE 1104
Cdd:PRK07764   687 PAAPAAPAGAAPAQPAPAPAATPPAGQAD----DPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAG 753
HMG-box_AtSSRP1 cd22013
high mobility group (HMG)-box found in Arabidopsis thaliana FACT complex subunit SSRP1 and ...
 39-113 7.26e-04

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


Pssm-ID: 438829 [Multi-domain]  Cd Length: 80  Bit Score: 39.84  E-value: 7.26e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424186   39 KREKD--HIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKAHPDWK 113
Cdd:cd22013      1 KKKKDpnAPKRALSGFMFFSLMERENLKKEKPGISFGEVGKVLGEKWKNMSADDKAPYEAKAQVDKERYKKEMSGYK 77
HMG-box_HMG20B cd22018
high mobility group (HMG)-box found in high mobility group protein 20B (HMG20B) and similar ...
 46-107 7.51e-04

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


Pssm-ID: 438834 [Multi-domain]  Cd Length: 85  Bit Score: 39.96  E-value: 7.51e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFK 107
Cdd:cd22018      3 KAPVTGYVRFLNERREQIRTQHPDLPFPEITKMLGAEWSKLQPHEKQRYLDEAERDKQQYMK 64
PRK07994 PRK07994
DNA polymerase III subunits gamma and tau; Validated
 893-1023 7.61e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236138 [Multi-domain]  Cd Length: 647  Bit Score: 44.09  E-value: 7.61e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  893 PAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPvitafyPGSPAPTSAPLGPPSQAPPSLVytvatsttpPA 972
Cdd:PRK07994   361 PAAPLPEPEVPPQSAAPAASAQATAAPTAAVAPPQAPAVPP------PPASAPQQAPAVPLPETTSQLL---------AA 425

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1720424186  973 ATILPKGPPASATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKA 1023
Cdd:PRK07994   426 RQQLQRAQGATKAKKSEPAAASRARPVNSALERLASVRPAPSALEKAPAKK 476
HMG-box_NSD2 cd21991
high mobility group (HMG)-box found in nuclear SET domain-containing protein 2 (NSD2) and ...
 45-94 9.47e-04

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: 9.47e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 1720424186   45 IRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKY 94
Cdd:cd21991      2 KKVKKGQFEVFCQKHREEVAQEHPDLSEEEIEEYLKKQWNNMSEKQRARY 51
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
937-1165 9.64e-04

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 43.71  E-value: 9.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  937 AFYP----GSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSpfpsatgsmtyslvAPKAQR 1012
Cdd:PRK12323   362 AFRPgqsgGGAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAA--------------APARRS 427

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1013 PSPKAPQKVKAAIASIPVGsfESGTTGRPGSTPrqssdSGVAREPAAPeseLEGQPTPPAPPPPTETWPPTARSSPPPPL 1092
Cdd:PRK12323   428 PAPEALAAARQASARGPGG--APAPAPAPAAAP-----AAAARPAAAG---PRPVAAAAAAAPARAAPAAAPAPADDDPP 497

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1720424186 1093 PAEERPGTKGPETASKFPSSSSDWRVPGLGLESRGEPPTPPSPAPATGPSGSSSGSSEGSSGRAAGDTPERKE 1165
Cdd:PRK12323   498 PWEELPPEFASPAPAQPDAAPAGWVAESIPDPATADPDDAFETLAPAPAAAPAPRAAAATEPVVAPRPPRASA 570
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 889-1115 1.18e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 43.62  E-value: 1.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  889 GPSGPAFVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSlvytVATST 968
Cdd:PHA03307   111 PSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQAALPLSSPEE----TARAP 186

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  969 TPPAATILPKGPPASATATPAPTSPfPSATGSMTYSLVAPKAQRPSpkAPQKVKAAIASIPVGSFESGTTGRPGSTPRQS 1048
Cdd:PHA03307   187 SSPPAEPPPSTPPAAASPRPPRRSS-PISASASSPAPAPGRSAADD--AGASSSDSSSSESSGCGWGPENECPLPRPAPI 263

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186 1049 SDSGVAREPAAPESELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTK--GPETASKFPSSSSD 1115
Cdd:PHA03307   264 TLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSssSSSRESSSSSTSSS 332
HMG-box_UBF1_rpt1-like cd21998
first high mobility group (HMG)-box found in upstream-binding factor 1 (UBF1) and similar ...
 43-111 1.34e-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: 38.84  E-value: 1.34e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720424186   43 DHIRRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHD------LAFQVKEAHFKA-HPD 111
Cdd:cd21998      2 DFPKKPLTPYFRFFMEKRAKYAKKHPEMSNLELTKILSKKYKELPEKKKQKYIQdyekekEEYEQKMARFREeHPD 77
HMG-box_CMB1-like cd22014
high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 ...
 47-108 1.39e-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: 38.50  E-value: 1.39e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720424186   47 RPMNAFMIFSKRHRALVHQRHPNQDNrtvSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 108
Cdd:cd22014      3 RPPSPFLLFMEEFRRNEDNGKNLVEL---SRIAAEAWKNMSEDEKQPYIDRAKELLEEYKKQ 61
PHA03247 PHA03247
large tegument protein UL36; Provisional
 403-1018 1.46e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 1.46e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  403 TQESGQGSTAVPLRPPPPGAGGPATPSKATRFPPTDSATFRRKRPEsvgsleapgpsviaappsgggnllqtlvlppske 482
Cdd:PHA03247  2545 SDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPD---------------------------------- 2590

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  483 dregtrVPSAPAPPLAYGAPAAPLCRPAAtmvtnvvrPVSSTPVPIASKPFPTSGRAEASSNDIAGARTEMGTGSRVPGG 562
Cdd:PHA03247  2591 ------APPQSARPRAPVDDRGDPRGPAP--------PSPLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDP 2656

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  563 SPMGVSLvySDKKSAAAATSPAPHLVAGPLLGTVGKAPATVTNlLVGTPGYGAPASPAVQFIAQGAPGSATPAGSGASTG 642
Cdd:PHA03247  2657 APGRVSR--PRRARRLGRAAQASSPPQRPRRRAARPTVGSLTS-LADPPPPPPTPEPAPHALVSATPLPPGPAAARQASP 2733

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  643 SGPNGPVPlgilQPGALGKAGGITQVQYILPTLPQQLQVAPAPAPAPGTKAAAPSGP--APTTSIRFTLPPGTSTNGKVL 720
Cdd:PHA03247  2734 ALPAAPAP----PAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPavASLSESRESLPSPWDPADPPA 2809

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  721 AATAPTAGIPILQ--SVPSAPPPKAQSVSPVQATPSGGSAQLLPGKVlvplaAPSMSV-RGGGAGQPLPLVSSPFSVPVQ 797
Cdd:PHA03247  2810 AVLAPAAALPPAAspAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGSV-----APGGDVrRRPPSRSPAAKPAAPARPPVR 2884

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  798 NGAQqpskiiqlTPVPVSTPSGLVPPLSPATMPGPTSQPQKVLLPSSTRITYVQSAgGHTLPLGTSSACSQTGTVTSYGP 877
Cdd:PHA03247  2885 RLAR--------PAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPP-PPPPPRPQPPLAPTTDPAGAGEP 2955

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  878 TssvalgftslgpsgPAFVQPLLSAgqaplLAPGQVgvsPVPSPQLPPActasgGPVITAFYPGSPAPTSAPLGPPSQAP 957
Cdd:PHA03247  2956 S--------------GAVPQPWLGA-----LVPGRV---AVPRFRVPQP-----APSREAPASSTPPLTGHSLSRVSSWA 3008

                          570       580       590       600       610       620
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720424186  958 PSLVYTVatSTTPPAATILPKGPPASATATPAPTSPFPSATGSmtYSLVAPKAQRPSPKAP 1018
Cdd:PHA03247  3009 SSLALHE--ETDPPPVSLKQTLWPPDDTEDSDADSLFDSDSER--SDLEALDPLPPEPHDP 3065
HMG-box_HMGXB4 cd21982
high mobility group (HMG)-box found in HMG domain-containing protein 4 (HMGXB4) and similar ...
 46-92 1.56e-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: 1.56e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQ 92
Cdd:cd21982      2 KKNMSAYQVFCKEYRVSIVAEHPGIDFGELSKKLAEVWKQLPEKDKL 48
kgd PRK12270
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 936-1029 1.95e-03

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


Pssm-ID: 237030 [Multi-domain]  Cd Length: 1228  Bit Score: 42.96  E-value: 1.95e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  936 TAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSpfpsatgsmtyslvAPKAQRPSP 1015
Cdd:PRK12270    34 ADYGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAAA--------------AAAAAPAAP 99

                           90
                   ....*....|....
gi 1720424186 1016 KAPQKVKAAIASIP 1029
Cdd:PRK12270   100 PAAAAAAAPAAAAV 113
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
815-1062 2.45e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 42.53  E-value: 2.45e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  815 STPSGLVPPLSPATMPGPtsQPQKVLLPSSTRITYVQSAGGHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPSGPA 894
Cdd:PRK07003   366 GAPGGGVPARVAGAVPAP--GARAAAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAA 443

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  895 FVQPLLSAGQAPLLAPGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAAT 974
Cdd:PRK07003   444 DGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPA 523

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  975 ILPKGPPASATATPAPTSPFPSATG---------------SMTYSLVAPKAQRPS--PKAPQKVKAAIASIPVgsfesgT 1037
Cdd:PRK07003   524 AAAPPAPEARPPTPAAAAPAARAGGaaaaldvlrnagmrvSSDRGARAAAAAKPAaaPAAAPKPAAPRVAVQV------P 597

                          250       260
                   ....*....|....*....|....*
gi 1720424186 1038 TGRPGSTPRQSSDSGVAREPAAPES 1062
Cdd:PRK07003   598 TPRARAATGDAPPNGAARAEQAAES 622
PHA03247 PHA03247
large tegument protein UL36; Provisional
 917-1402 2.73e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 42.62  E-value: 2.73e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  917 PVPSPQLPPACTASGGPVITAFYPGSPAPTSA---PLGPPSQAPPSlvytvatstTPPAATILPKGPPASATATPAPTSP 993
Cdd:PHA03247  2554 PLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRarrPDAPPQSARPR---------APVDDRGDPRGPAPPSPLPPDTHAP 2624

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  994 FPSatgsmtyslvaPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRPgSTPRQSSDSGVAREPAAPEselegQPTPPAP 1073
Cdd:PHA03247  2625 DPP-----------PPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPP-----QRPRRRA 2687

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1074 PPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSSDWRVPGLGLE----SRGEPPTPPSPAPATGPSGSSSGSS 1149
Cdd:PHA03247  2688 ARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAApappAVPAGPATPGGPARPARPPTTAGPP 2767

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1150 EGSSGRAAGDTPERKEVTSSGKKMKVRPPPLKKTFDSVDNRVlseVDFEERFAELPEFRPEEVLPSPTLQSLATSPRAil 1229
Cdd:PHA03247  2768 APAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPA---AVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-- 2842

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1230 gsyrkkrKNSTDLDSAPEDPTSPKRKMRRRSSCSSEPNTPKSAKcegdiftfdrtgtetedvlgeleyeKVPYSSLRRTL 1309
Cdd:PHA03247  2843 -------PGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPA-------------------------RPPVRRLARPA 2890

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1310 DQRRALVMQLFQDHgffPSAQATAAFQARyadifpskvclqlkirevrqkimqaATPTEQPPGAEAPLPGPPPTGMAATP 1389
Cdd:PHA03247  2891 VSRSTESFALPPDQ---PERPPQPQAPPP-------------------------PQPQPQPPPPPQPQPPPPPPPRPQPP 2942

                          490
                   ....*....|....
gi 1720424186 1390 V-PTPSPAGGPDPT 1402
Cdd:PHA03247  2943 LaPTTDPAGAGEPS 2956
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 907-1037 3.74e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 41.62  E-value: 3.74e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  907 LLA--PGQVGVSPVPSPQLPPACTASGGPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASA 984
Cdd:PRK14951   361 LLAfkPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAA 440

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  985 TATPAPTSPFPSATGSMTYSLVAPK-------AQRPSPKAPQKVKAAIASIPVGSFESGT 1037
Cdd:PRK14951   441 APAAVALAPAPPAQAAPETVAIPVRvapepavASAAPAPAAAPAAARLTPTEEGDVWHAT 500
PHA03378 PHA03378
EBNA-3B; Provisional
 824-1121 4.26e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 41.59  E-value: 4.26e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  824 LSPATMPGPTsQPQKVLLPSSTRITyvQSAGGHTlplGTSSACSQtGTVTSYGPTSSVALGFTSLGPSGPAFVQPLLSAG 903
Cdd:PHA03378   563 LLPAPGLGPL-QIQPLTSPTTSQLA--SSAPSYA---QTPWPVPH-PSQTPEPPTTQSHIPETSAPRQWPMPLRPIPMRP 635

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  904 QAPLLAPGQVGVSPVP--SPQLPPACTASGGpVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPP 981
Cdd:PHA03378   636 LRMQPITFNVLVFPTPhqPPQVEITPYKPTW-TQIGHIPYQPSPTGANTMLPIQWAPGTMQPPPRAPTPMRPPAAPPGRA 714

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  982 ASATATPAPTSPFPSATGSMTYSLVAPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRPGSTPRQSSDSGVAREPAAPE 1061
Cdd:PHA03378   715 QRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGAPTPQPPPQAPPAPQQRPRGAP 794

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186 1062 SELEGQPTPPAPPPPTETWPPTARSSPPPPLPAEERPGTKGPETASKFPSSSSDWRVPGL 1121
Cdd:PHA03378   795 TPQPPPQAGPTSMQLMPRAAPGQQGPTKQILRQLLTGGVKRGRPSLKKPAALERQAAAGP 854
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 855-1041 5.46e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 41.61  E-value: 5.46e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  855 GHTLPLGTSSACSQTGTVTSYGPTSSVALGFTSLGPSGPAFVQPLLSAGQAP-------LLAPGQVGVSPVPSPQLPPAC 927
Cdd:PRK10263   313 GAPITEPVAVAAAATTATQSWAAPVEPVTQTPPVASVDVPPAQPTVAWQPVPgpqtgepVIAPAPEGYPQQSQYAQPAVQ 392

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424186  928 TASG-----GPVITAFYPGSPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFPSAtgsmt 1002
Cdd:PRK10263   393 YNEPlqqpvQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQSTFAPQSTYQTEQT----- 467

                          170       180       190
                   ....*....|....*....|....*....|....*....
gi 1720424186 1003 ysLVAPKAQRPSPKAPQKVKAAIASIPVGSFESGTTGRP 1041
Cdd:PRK10263   468 --YQQPAAQEPLYQQPQPVEQQPVVEPEPVVEETKPARP 504
HMG-box_TOX-like cd21995
high mobility group (HMG)-box found in the TOX high mobility group box family; The TOX family ...
 46-108 6.47e-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: 36.69  E-value: 6.47e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1720424186   46 RRPMNAFMIFSKRHRALVHQRHPNQDNRTVSKILGEWWYALGPKEKQKYHDLAFQVKEAHFKA 108
Cdd:cd21995      1 QKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDSLDEEQKQVYKKKTEAAKKEYLKA 63
rad23 TIGR00601
UV excision repair protein Rad23; All proteins in this family for which functions are known ...
 942-1000 8.98e-03

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


Pssm-ID: 273167 [Multi-domain]  Cd Length: 378  Bit Score: 40.26  E-value: 8.98e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720424186  942 SPAPTSAPLGPPSQAPPSLVYTVATSTTPPAATILPKGPPASATATPAPTSPFPSATGS 1000
Cdd:TIGR00601   84 VAPPAATPTSAPTPTPSPPASPASGMSAAPASAVEEKSPSEESATATAPESPSTSVPSS 142
 
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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