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Conserved domains on  [gi|1721912137|ref|XP_030206588|]
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partner and localizer of BRCA2 isoform X1 [Gadus morhua]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PALB2_WD40 super family cl25090
Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner ...
 1098-1436 2.03e-43

Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner and localizer of BRCA2 (PALB2). It is a seven-bladed WD40-type beta-propeller. It binds to the N-terminus of BRCA2.


The actual alignment was detected with superfamily member pfam16756:

Pssm-ID: 435563  Cd Length: 347  Bit Score: 162.33  E-value: 2.03e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1098 FTHTLTAPAGGGLVDACCVSGPSGG---LWVAAAGKWAVCVWDQTSSSGWGLVHTWTFNK-PVISVFSVPDSVGLLCVTL 1173
Cdd:pfam16756   20 LISKLKNPSHSCAVDVSSVWWDVAGrreLCIVTACENSVSLWKSLDEWQWEKVHTWHFTEvPVIQIVPVPDACNLVCVAL 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1174 GQLEIQEVRVLSCSSRVE----VLLCQGVVQTVVGVARSRVVCSSHSPAISTLQIFLLSEDISAPNPQPLASPGMHVGAL 1249
Cdd:pfam16756  100 GNLEIGEIRLLFYSSEEEsfkqSLLKSGNIKAVLGLTDRRLVSSNGTLRDQQVELMSLSEEGRSKEKQTLMSPEETILAF 179

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1250 ATVDGLKDCLLGSAEGGHLFIWNLSTGQLLQRIQLDKELTHTACLRGYSYAGILLVLLQHQYlgsivreevqsyhredeg 1329
Cdd:pfam16756  180 AEVQGMQDALLGTTDLNNIVIWNLKTGQLLKKMHIGNSYPASICHKAYSDSGLLFVVLSHPH------------------ 241

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1330 drvSMEKEKPKTTLFTLVAINALNGKSVVANRLHQPEAWSGRLCEADVLGSKLVALNQSGSVYVWELggPVGP-RVVWAP 1408
Cdd:pfam16756  242 ---AKESESSGNPVFRLIAINPKTALNVGVMAYSLPAGHTGRYLDGDVKDQTAAAVLTSGAIAVWDL--LLGHcTALLPP 316

                          330       340       350
                   ....*....|....*....|....*....|
gi 1721912137 1409 EADG-WHVARWGGSDV-LVTGHQNGDLTLY 1436
Cdd:pfam16756  317 ESDEsWSLVRWSGTDScLLAGQKDGSVFVY 346
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 922-1113 1.82e-06

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 53.02  E-value: 1.82e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  922 TDASAGSPPPRPGACSQLLLSPSlVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASClPLTSSPCAPNLALPSPISPSTP 1001
Cdd:PHA03247  2545 SDDAGDPPPPLPPAAPPAAPDRS-VPPPRPAPRPSEPAVTSRARRPDAPPQSARPRA-PVDDRGDPRGPAPPSPLPPDTH 2622

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1002 ARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPP--------VAVGGQCQGVVPTRGP----------SVSDAGGPV 1063
Cdd:PHA03247  2623 APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGrvsrprraRRLGRAAQASSPPQRPrrraarptvgSLTSLADPP 2702

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1064 DPQPPPAAGASSRSHGAQEATGETEVVAEECPICFTHTLTAPAGGGLVDA 1113
Cdd:PHA03247  2703 PPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPG 2752
 
Name Accession Description Interval E-value
PALB2_WD40 pfam16756
Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner ...
 1098-1436 2.03e-43

Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner and localizer of BRCA2 (PALB2). It is a seven-bladed WD40-type beta-propeller. It binds to the N-terminus of BRCA2.


Pssm-ID: 435563  Cd Length: 347  Bit Score: 162.33  E-value: 2.03e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1098 FTHTLTAPAGGGLVDACCVSGPSGG---LWVAAAGKWAVCVWDQTSSSGWGLVHTWTFNK-PVISVFSVPDSVGLLCVTL 1173
Cdd:pfam16756   20 LISKLKNPSHSCAVDVSSVWWDVAGrreLCIVTACENSVSLWKSLDEWQWEKVHTWHFTEvPVIQIVPVPDACNLVCVAL 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1174 GQLEIQEVRVLSCSSRVE----VLLCQGVVQTVVGVARSRVVCSSHSPAISTLQIFLLSEDISAPNPQPLASPGMHVGAL 1249
Cdd:pfam16756  100 GNLEIGEIRLLFYSSEEEsfkqSLLKSGNIKAVLGLTDRRLVSSNGTLRDQQVELMSLSEEGRSKEKQTLMSPEETILAF 179

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1250 ATVDGLKDCLLGSAEGGHLFIWNLSTGQLLQRIQLDKELTHTACLRGYSYAGILLVLLQHQYlgsivreevqsyhredeg 1329
Cdd:pfam16756  180 AEVQGMQDALLGTTDLNNIVIWNLKTGQLLKKMHIGNSYPASICHKAYSDSGLLFVVLSHPH------------------ 241

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1330 drvSMEKEKPKTTLFTLVAINALNGKSVVANRLHQPEAWSGRLCEADVLGSKLVALNQSGSVYVWELggPVGP-RVVWAP 1408
Cdd:pfam16756  242 ---AKESESSGNPVFRLIAINPKTALNVGVMAYSLPAGHTGRYLDGDVKDQTAAAVLTSGAIAVWDL--LLGHcTALLPP 316

                          330       340       350
                   ....*....|....*....|....*....|
gi 1721912137 1409 EADG-WHVARWGGSDV-LVTGHQNGDLTLY 1436
Cdd:pfam16756  317 ESDEsWSLVRWSGTDScLLAGQKDGSVFVY 346
PHA03247 PHA03247
large tegument protein UL36; Provisional
 922-1113 1.82e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 53.02  E-value: 1.82e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  922 TDASAGSPPPRPGACSQLLLSPSlVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASClPLTSSPCAPNLALPSPISPSTP 1001
Cdd:PHA03247  2545 SDDAGDPPPPLPPAAPPAAPDRS-VPPPRPAPRPSEPAVTSRARRPDAPPQSARPRA-PVDDRGDPRGPAPPSPLPPDTH 2622

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1002 ARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPP--------VAVGGQCQGVVPTRGP----------SVSDAGGPV 1063
Cdd:PHA03247  2623 APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGrvsrprraRRLGRAAQASSPPQRPrrraarptvgSLTSLADPP 2702

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1064 DPQPPPAAGASSRSHGAQEATGETEVVAEECPICFTHTLTAPAGGGLVDA 1113
Cdd:PHA03247  2703 PPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPG 2752
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 879-1078 6.30e-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: 47.84  E-value: 6.30e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  879 SPSKCIYSQKARHACTDPGVQEDQRMTHLP----NHSLIDEHTTNSPTDASAGSPPPRPGACSqlllSPSLVSPPCPLLa 954
Cdd:pfam03154  143 STSPSIPSPQDNESDSDSSAQQQILQTQPPvlqaQSGAASPPSPPPPGTTQAATAGPTPSAPS----VPPQGSPATSQP- 217

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  955 phllpsspplpslgltPHQARASCLPLT---SSPCAPNLALPSPISPSTPARSPP---HLSPCPIPVSPHRGAPAPAPTS 1028
Cdd:pfam03154  218 ----------------PNQTQSTAAPHTliqQTPTLHPQRLPSPHPPLQPMTQPPppsQVSPQPLPQPSLHGQMPPMPHS 281

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1721912137 1029 RQTSVSLDP-PVAVggqcQGVVPTrgPSVSDAGGPVDPQPPPAAGASSRSH 1078
Cdd:pfam03154  282 LQTGPSHMQhPVPP----QPFPLT--PQSSQSQVPPGPSPAAPGQSQQRIH 326
half-pint TIGR01645
poly-U binding splicing factor, half-pint family; The proteins represented by this model ...
 938-1089 8.51e-03

poly-U binding splicing factor, half-pint family; The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.


Pssm-ID: 130706 [Multi-domain]  Cd Length: 612  Bit Score: 40.44  E-value: 8.51e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  938 QLLLSPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNlalPSPISPSTPARSPPHLSPCPIPVSP 1017
Cdd:TIGR01645  274 QYLRVGKCVTPPDALLQPATVSAIPAAAAVAAAAATAKIMAAEAVAGAAVLG---PRAQSPATPSSSLPTDIGNKAVVSS 350

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1721912137 1018 HRGAPAPAPTSRQTSVSLDPPvavgGQCQGVVPTRG-----PSVSDAGGPVDP-QPPPAAGASSRSHGAQEATGETEV 1089
Cdd:TIGR01645  351 AKKEAEEVPPLPQAAPAVVKP----GPMEIPTPVPPpglaiPSLVAPPGLVAPtEINPSFLASPRKKMKREKLPVTFG 424
 
Name Accession Description Interval E-value
PALB2_WD40 pfam16756
Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner ...
 1098-1436 2.03e-43

Partner and localizer of BRCA2 WD40 domain; This domain is found at the C-terminus of partner and localizer of BRCA2 (PALB2). It is a seven-bladed WD40-type beta-propeller. It binds to the N-terminus of BRCA2.


Pssm-ID: 435563  Cd Length: 347  Bit Score: 162.33  E-value: 2.03e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1098 FTHTLTAPAGGGLVDACCVSGPSGG---LWVAAAGKWAVCVWDQTSSSGWGLVHTWTFNK-PVISVFSVPDSVGLLCVTL 1173
Cdd:pfam16756   20 LISKLKNPSHSCAVDVSSVWWDVAGrreLCIVTACENSVSLWKSLDEWQWEKVHTWHFTEvPVIQIVPVPDACNLVCVAL 99

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1174 GQLEIQEVRVLSCSSRVE----VLLCQGVVQTVVGVARSRVVCSSHSPAISTLQIFLLSEDISAPNPQPLASPGMHVGAL 1249
Cdd:pfam16756  100 GNLEIGEIRLLFYSSEEEsfkqSLLKSGNIKAVLGLTDRRLVSSNGTLRDQQVELMSLSEEGRSKEKQTLMSPEETILAF 179

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1250 ATVDGLKDCLLGSAEGGHLFIWNLSTGQLLQRIQLDKELTHTACLRGYSYAGILLVLLQHQYlgsivreevqsyhredeg 1329
Cdd:pfam16756  180 AEVQGMQDALLGTTDLNNIVIWNLKTGQLLKKMHIGNSYPASICHKAYSDSGLLFVVLSHPH------------------ 241

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1330 drvSMEKEKPKTTLFTLVAINALNGKSVVANRLHQPEAWSGRLCEADVLGSKLVALNQSGSVYVWELggPVGP-RVVWAP 1408
Cdd:pfam16756  242 ---AKESESSGNPVFRLIAINPKTALNVGVMAYSLPAGHTGRYLDGDVKDQTAAAVLTSGAIAVWDL--LLGHcTALLPP 316

                          330       340       350
                   ....*....|....*....|....*....|
gi 1721912137 1409 EADG-WHVARWGGSDV-LVTGHQNGDLTLY 1436
Cdd:pfam16756  317 ESDEsWSLVRWSGTDScLLAGQKDGSVFVY 346
PHA03247 PHA03247
large tegument protein UL36; Provisional
 922-1113 1.82e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 53.02  E-value: 1.82e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  922 TDASAGSPPPRPGACSQLLLSPSlVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASClPLTSSPCAPNLALPSPISPSTP 1001
Cdd:PHA03247  2545 SDDAGDPPPPLPPAAPPAAPDRS-VPPPRPAPRPSEPAVTSRARRPDAPPQSARPRA-PVDDRGDPRGPAPPSPLPPDTH 2622

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1002 ARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPP--------VAVGGQCQGVVPTRGP----------SVSDAGGPV 1063
Cdd:PHA03247  2623 APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGrvsrprraRRLGRAAQASSPPQRPrrraarptvgSLTSLADPP 2702

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1064 DPQPPPAAGASSRSHGAQEATGETEVVAEECPICFTHTLTAPAGGGLVDA 1113
Cdd:PHA03247  2703 PPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPG 2752
PHA03247 PHA03247
large tegument protein UL36; Provisional
 917-1070 2.18e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 52.63  E-value: 2.18e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  917 TTNSPTDASAGSPPPRPGAcsqlllsPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARAScLPLTSSPCAPNLALPSPI 996
Cdd:PHA03247  2744 VPAGPATPGGPARPARPPT-------TAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRES-LPSPWDPADPPAAVLAPA 2815

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1721912137  997 SPSTPARSPPhlSPCPIPVSPHRGAPAPAPTSRQTSVSLDPPVAVGGQcqgvVPTRGPSVSDAGGPVDPQPPPA 1070
Cdd:PHA03247  2816 AALPPAASPA--GPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGD----VRRRPPSRSPAAKPAAPARPPV 2883
PHA03247 PHA03247
large tegument protein UL36; Provisional
 872-1071 1.07e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 50.32  E-value: 1.07e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  872 PAEEPFESPSKCIYSQKARHACTDPGVQEDQRMTHLPNHSLiDEHTTNSPTDASAGSPP--PRPGACSQLLLS-PSLVSP 948
Cdd:PHA03247  2623 APDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSR-PRRARRLGRAAQASSPPqrPRRRAARPTVGSlTSLADP 2701

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  949 PCPLLAPHLL-PSSPPLPSLGLTPHQARASCLPLTSSPCAPNLAlPSPISPSTPAR--------SPPHLSPCPIPVS-PH 1018
Cdd:PHA03247  2702 PPPPPTPEPApHALVSATPLPPGPAAARQASPALPAAPAPPAVP-AGPATPGGPARparppttaGPPAPAPPAAPAAgPP 2780

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1721912137 1019 RGAPAPAPTSRQTSVSLDPPVAVGGQCQGVVPTRGPSVSDAGGPVDPQPPPAA 1071
Cdd:PHA03247  2781 RRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTS 2833
PHA02682 PHA02682
ORF080 virion core protein; Provisional
 973-1105 1.86e-05

ORF080 virion core protein; Provisional


Pssm-ID: 177464 [Multi-domain]  Cd Length: 280  Bit Score: 48.32  E-value: 1.86e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  973 QARASCL--PLTSSPCAPNLALPSPiSPSTPARSPPhlSPCPIPVsphrgAPAPAPTSRQTSVSLDPPVAVGGQCQGVVP 1050
Cdd:PHA02682    67 KANSACMqrPSGQSPLAPSPACAAP-APACPACAPA--APAPAVT-----CPAPAPACPPATAPTCPPPAVCPAPARPAP 138

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1721912137 1051 TRGPSVSDAgGPVDPQPPPAAGASSRSHGAQEATGETEVVAEECPICFTHTLTAP 1105
Cdd:PHA02682   139 ACPPSTRQC-PPAPPLPTPKPAPAAKPIFLHNQLPPPDYPAASCPTIETAPAASP 192
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
947-1074 3.81e-05

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 48.33  E-value: 3.81e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  947 SPPCPLLAPHLLPSSPPLPSLGLTPHQARAsclpltssPCAPNLALPSPISPSTPARSPPHLSPCPIPVSPHRGAPAPAP 1026
Cdd:PRK12323   373 GPATAAAAPVAQPAPAAAAPAAAAPAPAAP--------PAAPAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGP 444

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*...
gi 1721912137 1027 TSRQTSVSLDPPVAVGGQCQGVVPTRGPSVSDAGGPVDPQPPPAAGAS 1074
Cdd:PRK12323   445 GGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPA 492
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 879-1078 6.30e-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: 47.84  E-value: 6.30e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  879 SPSKCIYSQKARHACTDPGVQEDQRMTHLP----NHSLIDEHTTNSPTDASAGSPPPRPGACSqlllSPSLVSPPCPLLa 954
Cdd:pfam03154  143 STSPSIPSPQDNESDSDSSAQQQILQTQPPvlqaQSGAASPPSPPPPGTTQAATAGPTPSAPS----VPPQGSPATSQP- 217

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  955 phllpsspplpslgltPHQARASCLPLT---SSPCAPNLALPSPISPSTPARSPP---HLSPCPIPVSPHRGAPAPAPTS 1028
Cdd:pfam03154  218 ----------------PNQTQSTAAPHTliqQTPTLHPQRLPSPHPPLQPMTQPPppsQVSPQPLPQPSLHGQMPPMPHS 281

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1721912137 1029 RQTSVSLDP-PVAVggqcQGVVPTrgPSVSDAGGPVDPQPPPAAGASSRSH 1078
Cdd:pfam03154  282 LQTGPSHMQhPVPP----QPFPLT--PQSSQSQVPPGPSPAAPGQSQQRIH 326
PHA03247 PHA03247
large tegument protein UL36; Provisional
 917-1085 1.13e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 47.24  E-value: 1.13e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  917 TTNSPTDASAGSPPPRPGACSQLLLSPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNLALPSPI 996
Cdd:PHA03247  2691 TVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPA 2770

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  997 SPSTPARSPPHLSPCPiPVSPHRGAPAPAPTSRQTSvslDPPVAVGGQCQGVVPTRGPSV----SDAGGPVDPQPPPAAG 1072
Cdd:PHA03247  2771 PPAAPAAGPPRRLTRP-AVASLSESRESLPSPWDPA---DPPAAVLAPAAALPPAASPAGplppPTSAQPTAPPPPPGPP 2846

                          170
                   ....*....|...
gi 1721912137 1073 ASSRSHGAQEATG 1085
Cdd:PHA03247  2847 PPSLPLGGSVAPG 2859
PHA03247 PHA03247
large tegument protein UL36; Provisional
 865-1113 1.33e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 46.86  E-value: 1.33e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  865 AVDDCG-----FPAEEPFESPSKCIYSQKARHACTDPGVQEDQRMTHLPNHSlideHTTNSPTDASagSPPPRPGACSQL 939
Cdd:PHA03247  2544 ASDDAGdppppLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQS----ARPRAPVDDR--GDPRGPAPPSPL 2617

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  940 LLSPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNLALPSPISPSTPARSP--PHLSPCPIPVS- 1016
Cdd:PHA03247  2618 PPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPrrRAARPTVGSLTs 2697

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1017 -----PHRGAPAPAPTSRQTSVSLDPPVAVGGQCQGVVPTRGPSVSDAGGPVDPQPPPAAGASSRSHGAQEATGETEVVA 1091
Cdd:PHA03247  2698 ladppPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAA 2777

                          250       260
                   ....*....|....*....|..
gi 1721912137 1092 EECPicfthTLTAPAGGGLVDA 1113
Cdd:PHA03247  2778 GPPR-----RLTRPAVASLSES 2794
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 843-1095 1.36e-04

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 46.70  E-value: 1.36e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  843 QGHGGGVVRLSEDHRAANH-QRAAVDDCGFPAEEPFESPSKCIYSQKARhacTDPGVQEDQRMTHLPNHslidehtTNSP 921
Cdd:PHA03307    37 SGSQGQLVSDSAELAAVTVvAGAAACDRFEPPTGPPPGPGTEAPANESR---STPTWSLSTLAPASPAR-------EGSP 106

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  922 TDASAGSPPPRPGAcsqlllsPSLVSPPcpllAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNLALPSPISPSTP 1001
Cdd:PHA03307   107 TPPGPSSPDPPPPT-------PPPASPP----PSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQAALP 175

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1002 ARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPPVAVGGQCQGVVPTRGPSVSdaggpvdpqpppaAGASSRSHGAQ 1081
Cdd:PHA03307   176 LSSPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADD-------------AGASSSDSSSS 242

                          250
                   ....*....|....
gi 1721912137 1082 EATGETEVVAEECP 1095
Cdd:PHA03307   243 ESSGCGWGPENECP 256
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 920-1093 1.59e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 46.13  E-value: 1.59e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  920 SPTDASAGSPPPRPGACSQLLLSPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPcAPNLALPSPISPS 999
Cdd:PRK07764   616 AAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAP-PPAPAPAAPAAPA 694

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1000 TPARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPPVAVGGqcqgVVPTRGPSVSDAGGPVDPQPPPAAGASSRSHG 1079
Cdd:PRK07764   695 GAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADDP----VPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAP 770

                          170
                   ....*....|....
gi 1721912137 1080 AQEATGETEVVAEE 1093
Cdd:PRK07764   771 AAAPPPSPPSEEEE 784
PHA02682 PHA02682
ORF080 virion core protein; Provisional
 942-1045 2.63e-04

ORF080 virion core protein; Provisional


Pssm-ID: 177464 [Multi-domain]  Cd Length: 280  Bit Score: 44.47  E-value: 2.63e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  942 SPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNLALPSPISPSTPArsPPHLSPCP--IPVSPHR 1019
Cdd:PHA02682    80 SPLAPSPACAAPAPACPACAPAAPAPAVTCPAPAPACPPATAPTCPPPAVCPAPARPAPAC--PPSTRQCPpaPPLPTPK 157

                           90       100
                   ....*....|....*....|....*.
gi 1721912137 1020 GAPAPAPTSRQTSVSldPPVAVGGQC 1045
Cdd:PHA02682   158 PAPAAKPIFLHNQLP--PPDYPAASC 181
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 970-1092 3.19e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 45.09  E-value: 3.19e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  970 TPHQARASCLPLTSSPCAPNLALPSPISPSTPARSPPHLSPCPIPVSPHRgAPAPAPTSRQTSVSLDPPVAVGGQCQGVV 1049
Cdd:PRK14951   383 RPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAA-APAAAPAAAPAAVALAPAPPAQAAPETVA 461

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 1721912137 1050 PTR----GPSVSDAGGPVDPQPPPAAGASSRSHGAQEATGETEVVAE 1092
Cdd:PRK14951   462 IPVrvapEPAVASAAPAPAAAPAAARLTPTEEGDVWHATVQQLAAAE 508
PHA03247 PHA03247
large tegument protein UL36; Provisional
 863-1076 4.50e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.93  E-value: 4.50e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  863 RAAVDDCGFPAEEPFESPSKciysqKARHACTDPGVQEDQRMTHLPNHSLIDEHTTNSPTDASAGSPPPRPGACSQLLLS 942
Cdd:PHA03247  2599 RAPVDDRGDPRGPAPPSPLP-----PDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRA 2673

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  943 PSLVSPPcpllaphllpsspplpsLGLTPHQARASCLPLTSspcapnLALPSPISPSTPARSPPHLSPCPIPVSPHRG-A 1021
Cdd:PHA03247  2674 AQASSPP-----------------QRPRRRAARPTVGSLTS------LADPPPPPPTPEPAPHALVSATPLPPGPAAArQ 2730

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1721912137 1022 PAPAPTSRQTsvsldPPVAVGGQCQGVVPTRGPSVSDAGGPVDPQPP--PAAGASSR 1076
Cdd:PHA03247  2731 ASPALPAAPA-----PPAVPAGPATPGGPARPARPPTTAGPPAPAPPaaPAAGPPRR 2782
PHA03247 PHA03247
large tegument protein UL36; Provisional
 917-1078 6.47e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.54  E-value: 6.47e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  917 TTNSPTDASAGSPPPRPGACSQLLLS---------------PSLVSPPCPLLAPHLLPSSPPLPslgltPHQARASCLPL 981
Cdd:PHA03247  2826 GPLPPPTSAQPTAPPPPPGPPPPSLPlggsvapggdvrrrpPSRSPAAKPAAPARPPVRRLARP-----AVSRSTESFAL 2900

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  982 TSSPCAPNLALPSPISPSTPARSPPHLSPCPIPVSPHRGAPAPAPTSRQTSVSLDPPVAVGGQCQGVVPTRGPSV-SDAG 1060
Cdd:PHA03247  2901 PPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPrFRVP 2980

                          170
                   ....*....|....*...
gi 1721912137 1061 GPVDPQPPPAAGASSRSH 1078
Cdd:PHA03247  2981 QPAPSREAPASSTPPLTG 2998
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 914-1085 1.46e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 43.24  E-value: 1.46e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  914 DEHTTNSPTDASAGSPPPRPGACSQLLLSPSLVSPpcplLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNLALP 993
Cdd:PHA03307   205 RPPRRSSPISASASSPAPAPGRSAADDAGASSSDS----SSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSS 280

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  994 SPiSPSTPARSPPHLSPCPIPVSPHRGAPAPAPT-----SRQTSVSLDPPVAVG------GQCQGVVPTRGPSVSDAGGP 1062
Cdd:PHA03307   281 RP-GPASSSSSPRERSPSPSPSSPGSGPAPSSPRassssSSSRESSSSSTSSSSessrgaAVSPGPSPSRSPSPSRPPPP 359

                          170       180
                   ....*....|....*....|...
gi 1721912137 1063 VDPQPPPAAGASSRSHGAQEATG 1085
Cdd:PHA03307   360 ADPSSPRKRPRPSRAPSSPAASA 382
DUF4813 pfam16072
Domain of unknown function (DUF4813); This family of proteins is functionally uncharacterized. ...
 989-1073 3.00e-03

Domain of unknown function (DUF4813); This family of proteins is functionally uncharacterized. This family of proteins is found in eukaryotes. Proteins in this family are typically between 345 and 672 amino acids in length.


Pssm-ID: 435117 [Multi-domain]  Cd Length: 288  Bit Score: 41.28  E-value: 3.00e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  989 NLALPSPISPSTPARSPPhlsPCPIPVSPHRGAPAPAPTSRQT------SVSLDPPVAVGGQCQGVVPTRGPSVSdAGGP 1062
Cdd:pfam16072  162 NAGGQQPAAPAAPAYPVA---PAAYPAQAPAAAPAPAPGAPQTplaplnPVAAAPAAAAGAAAAPVVAAAAPAAA-APPP 237

                           90
                   ....*....|.
gi 1721912137 1063 VDPQPPPAAGA 1073
Cdd:pfam16072  238 PAPAAPPADAA 248
PHA03247 PHA03247
large tegument protein UL36; Provisional
 921-1069 5.52e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.46  E-value: 5.52e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  921 PTDASAGSPPPRPGACSQLllSPSLVSPPCPLLAPHLLpsspplpslgltphqarasclPLTSSPCAPNLALPSPISPST 1000
Cdd:PHA03247  2804 PADPPAAVLAPAAALPPAA--SPAGPLPPPTSAQPTAP---------------------PPPPGPPPPSLPLGGSVAPGG 2860

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1721912137 1001 P-ARSPPHLSPCPIPVSPH----RGAPAPAPtSRQTSVSLDPPVAVGGQCQGVVPTRGPSVSDAGGPVDPQPPP 1069
Cdd:PHA03247  2861 DvRRRPPSRSPAAKPAAPArppvRRLARPAV-SRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPP 2933
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 894-1080 6.32e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 41.31  E-value: 6.32e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  894 TDPGVQEDQRM----THLPNHSLIDEHTTNSPTDASAGSP----------------PPRPGACSQLLLSPSLVSPPCPLL 953
Cdd:PHA03307   130 PAPDLSEMLRPvgspGPPPAASPPAAGASPAAVASDAASSrqaalplsspeetaraPSSPPAEPPPSTPPAAASPRPPRR 209

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  954 -----APHLLPSSPPLPSLGLTPHQARASCLPLTSSPC------------APNLALPSPI-------------SPSTPAR 1003
Cdd:PHA03307   210 sspisASASSPAPAPGRSAADDAGASSSDSSSSESSGCgwgpenecplprPAPITLPTRIweasgwngpssrpGPASSSS 289

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137 1004 SPPHLSPCPIPVSPHRGAPAPAPT-----SRQTSVSLDPPVAVGGQCQGVVPTRGPSVSDAGGPVDPqPPPAAGASSRSH 1078
Cdd:PHA03307   290 SPRERSPSPSPSSPGSGPAPSSPRassssSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRP-PPPADPSSPRKR 368


                   ..
gi 1721912137 1079 GA 1080
Cdd:PHA03307   369 PR 370
half-pint TIGR01645
poly-U binding splicing factor, half-pint family; The proteins represented by this model ...
 938-1089 8.51e-03

poly-U binding splicing factor, half-pint family; The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.


Pssm-ID: 130706 [Multi-domain]  Cd Length: 612  Bit Score: 40.44  E-value: 8.51e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721912137  938 QLLLSPSLVSPPCPLLAPHLLPSSPPLPSLGLTPHQARASCLPLTSSPCAPNlalPSPISPSTPARSPPHLSPCPIPVSP 1017
Cdd:TIGR01645  274 QYLRVGKCVTPPDALLQPATVSAIPAAAAVAAAAATAKIMAAEAVAGAAVLG---PRAQSPATPSSSLPTDIGNKAVVSS 350

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1721912137 1018 HRGAPAPAPTSRQTSVSLDPPvavgGQCQGVVPTRG-----PSVSDAGGPVDP-QPPPAAGASSRSHGAQEATGETEV 1089
Cdd:TIGR01645  351 AKKEAEEVPPLPQAAPAVVKP----GPMEIPTPVPPpglaiPSLVAPPGLVAPtEINPSFLASPRKKMKREKLPVTFG 424
 
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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