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Conserved domains on  [gi|1318663329|ref|NP_001346261|]
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protein transport protein Sec31A isoform c [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-332 8.44e-25

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 105.88  E-value: 8.44e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   13 AWSPAQNhpiYLATGtsaqqldatfSTNASLEIFELD-------LSDPSLDMKSCATFSSSHRyhkliwgphkmdskgdv 85
Cdd:cd00200     16 AFSPDGK---LLATG----------SGDGTIKVWDLEtgellrtLKGHTGPVRDVAASADGTY----------------- 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   86 sgvLIAGGENGNIILYDPSKiiagdKEVVIAQKDkHTGPVRALDvniFQTN--LVASGANESEIYIWDLNNFATPMTPGA 163
Cdd:cd00200     66 ---LASGSSDKTIRLWDLET-----GECVRTLTG-HTSYVSSVA---FSPDgrILSSSSRDKTIKVWDVETGKCLTTLRG 133

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  164 KTQPpedISCIAWNrQVQHILASASPSGRATVWDLRKNEPIIKVSDHSNRMHCsgLAWHPDvATQMVLASEDDrlpVIQM 243
Cdd:cd00200    134 HTDW---VNSVAFS-PDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNS--VAFSPD-GEKLLSSSSDG---TIKL 203

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  244 WDLRfASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaAS 323
Cdd:cd00200    204 WDLS-TGKCLGTLRGHENGVNSVAFS-PDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLAS-GS 280


                   ....*....
gi 1318663329  324 FDGRISVYS 332
Cdd:cd00200    281 ADGTIRIWD 289
ACE1-Sec16-like super family cl14807
Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat ...
 572-766 1.73e-09

Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat complex plays an important role in vesicular traffic of newly synthezised proteins from the endoplasmatic reticulum (ER) to the Golgi apparatus by mediating the formation of transport vesicles. COPII consists of an outer coat, made up of the scaffold proteins Sec31 and Sec13, and the cargo adaptor complex, Sec23 and Sec24, which are recruited by the small GTPase Sar1. Sec16 is involved in the early steps of the assembly process. Sec16 forms elongated heterotetramers with Sec13, Sec13-(Sec16)2-Sec13. It interacts with Sec13 by insertion of a single beta-blade to close the six-bladded beta propeller of Sec13. In the same way Sec13 interacts with Sec31 and Nup145C, a nuclear pore protein, all of these contain a structurally related ancestral coatomer element 1 (ACE1). Sec16 is believed to be a key component in maintaining the integrity of the ER exit site.


The actual alignment was detected with superfamily member cd09233:

Pssm-ID: 449359 [Multi-domain]  Cd Length: 314  Bit Score: 60.73  E-value: 1.73e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  572 ITRALLTGNFESAVDLCLhDNRM-ADAIILAIAGGQELLAQTQKKyFAKSQSKIT---RLITAVVMKNWREIVESC---- 643
Cdd:cd09233     69 FRNLLLTGNRKEALELAL-DNGLwAHALLLASSLGKETWAEVVSR-FARSESKLNdplQTLYQLFSGNSPEAITELadnp 146

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  644 -----DLKNWREALAAVLTYAKPD-EFSALCdLLGTRLEREGDSLlrtQACLCYICAGnverlvacwtkAQDGSSPLS-- 715
Cdd:cd09233    147 aeaewALGNWREHLAIILSNRTSNlDLEALV-ELGDLLAQRGLVE---AAHICYLLAG-----------VPLGPYPSSps 211

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1318663329  716 -----LQDLIEKVVILR--KAVQLT------QALDTNTVG--ALLAEKMsQYASLLAAQGSIAAAL 766
Cdd:cd09233    212 scllgGAVHNKSPRTFAtpEAIQLTeiyeyaLSLGNPQFGlpHLQPYKL-IHAARLAELGLVSEAL 276
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 792-1073 3.66e-09

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 61.49  E-value: 3.66e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  792 PVSGQESSQSPYERQPLSKGRPGPVAGHSQMPRVQTQQYYPhgenPPPPGFIMQGNVIPNPAAPLPTAPGH-MPSQLPPY 870
Cdd:PHA03247  2702 PPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPP----AVPAGPATPGGPARPARPPTTAGPPApAPPAAPAA 2777

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  871 PQPQPYQPAQQYSFGTGGAAAYRPQQPVAPPASNAYPNTPYISPVASYSGQPQMYTAQQASSPTSSSAASfPPPSSGASF 950
Cdd:PHA03247  2778 GPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPP-PSLPLGGSV 2856

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  951 QHGGPGA--PPSSSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENFM--PPVPITSPIMNPSGDPQSQGLQQQPSTPG 1026
Cdd:PHA03247  2857 APGGDVRrrPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPerPPQPQAPPPPQPQPQPPPPPQPQPPPPPP 2936

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*...
gi 1318663329 1027 PLSSHASFPQQHLAG-GQPFHGVQQPLAQTGMPPSFSKPNTEGAPGAP 1073
Cdd:PHA03247  2937 PRPQPPLAPTTDPAGaGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAP 2984
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-332 8.44e-25

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 105.88  E-value: 8.44e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   13 AWSPAQNhpiYLATGtsaqqldatfSTNASLEIFELD-------LSDPSLDMKSCATFSSSHRyhkliwgphkmdskgdv 85
Cdd:cd00200     16 AFSPDGK---LLATG----------SGDGTIKVWDLEtgellrtLKGHTGPVRDVAASADGTY----------------- 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   86 sgvLIAGGENGNIILYDPSKiiagdKEVVIAQKDkHTGPVRALDvniFQTN--LVASGANESEIYIWDLNNFATPMTPGA 163
Cdd:cd00200     66 ---LASGSSDKTIRLWDLET-----GECVRTLTG-HTSYVSSVA---FSPDgrILSSSSRDKTIKVWDVETGKCLTTLRG 133

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  164 KTQPpedISCIAWNrQVQHILASASPSGRATVWDLRKNEPIIKVSDHSNRMHCsgLAWHPDvATQMVLASEDDrlpVIQM 243
Cdd:cd00200    134 HTDW---VNSVAFS-PDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNS--VAFSPD-GEKLLSSSSDG---TIKL 203

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  244 WDLRfASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaAS 323
Cdd:cd00200    204 WDLS-TGKCLGTLRGHENGVNSVAFS-PDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLAS-GS 280


                   ....*....
gi 1318663329  324 FDGRISVYS 332
Cdd:cd00200    281 ADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
89-333 1.29e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 104.99  E-value: 1.29e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   89 LIAGGENGNIILYDpskiIAGDKEvvIAQKDKHTGPVRALDVNiFQTNLVASGANESEIYIWDLNNFATPMTPGAKTQPp 168
Cdd:COG2319    177 LASGSDDGTVRLWD----LATGKL--LRTLTGHTGAVRSVAFS-PDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGS- 248

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  169 edISCIAWNRQVQHiLASASPSGRATVWDLRKNEPIIKVSDHSNRMHcsGLAWHPDvATQMVLASEDDRlpvIQMWDLRf 248
Cdd:COG2319    249 --VRSVAFSPDGRL-LASGSADGTVRLWDLATGELLRTLTGHSGGVN--SVAFSPD-GKLLASGSDDGT---VRLWDLA- 318

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  249 ASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaASFDGRI 328
Cdd:COG2319    319 TGKLLRTLTGHTGAVRSVAFS-PDGKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLAS-GSADGTV 396


                   ....*
gi 1318663329  329 SVYSI 333
Cdd:COG2319    397 RLWDL 401
ACE1-Sec16-like cd09233
Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat ...
 572-766 1.73e-09

Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat complex plays an important role in vesicular traffic of newly synthezised proteins from the endoplasmatic reticulum (ER) to the Golgi apparatus by mediating the formation of transport vesicles. COPII consists of an outer coat, made up of the scaffold proteins Sec31 and Sec13, and the cargo adaptor complex, Sec23 and Sec24, which are recruited by the small GTPase Sar1. Sec16 is involved in the early steps of the assembly process. Sec16 forms elongated heterotetramers with Sec13, Sec13-(Sec16)2-Sec13. It interacts with Sec13 by insertion of a single beta-blade to close the six-bladded beta propeller of Sec13. In the same way Sec13 interacts with Sec31 and Nup145C, a nuclear pore protein, all of these contain a structurally related ancestral coatomer element 1 (ACE1). Sec16 is believed to be a key component in maintaining the integrity of the ER exit site.


Pssm-ID: 187750 [Multi-domain]  Cd Length: 314  Bit Score: 60.73  E-value: 1.73e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  572 ITRALLTGNFESAVDLCLhDNRM-ADAIILAIAGGQELLAQTQKKyFAKSQSKIT---RLITAVVMKNWREIVESC---- 643
Cdd:cd09233     69 FRNLLLTGNRKEALELAL-DNGLwAHALLLASSLGKETWAEVVSR-FARSESKLNdplQTLYQLFSGNSPEAITELadnp 146

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  644 -----DLKNWREALAAVLTYAKPD-EFSALCdLLGTRLEREGDSLlrtQACLCYICAGnverlvacwtkAQDGSSPLS-- 715
Cdd:cd09233    147 aeaewALGNWREHLAIILSNRTSNlDLEALV-ELGDLLAQRGLVE---AAHICYLLAG-----------VPLGPYPSSps 211

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1318663329  716 -----LQDLIEKVVILR--KAVQLT------QALDTNTVG--ALLAEKMsQYASLLAAQGSIAAAL 766
Cdd:cd09233    212 scllgGAVHNKSPRTFAtpEAIQLTeiyeyaLSLGNPQFGlpHLQPYKL-IHAARLAELGLVSEAL 276
PHA03247 PHA03247
large tegument protein UL36; Provisional
 792-1073 3.66e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 61.49  E-value: 3.66e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  792 PVSGQESSQSPYERQPLSKGRPGPVAGHSQMPRVQTQQYYPhgenPPPPGFIMQGNVIPNPAAPLPTAPGH-MPSQLPPY 870
Cdd:PHA03247  2702 PPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPP----AVPAGPATPGGPARPARPPTTAGPPApAPPAAPAA 2777

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  871 PQPQPYQPAQQYSFGTGGAAAYRPQQPVAPPASNAYPNTPYISPVASYSGQPQMYTAQQASSPTSSSAASfPPPSSGASF 950
Cdd:PHA03247  2778 GPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPP-PSLPLGGSV 2856

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  951 QHGGPGA--PPSSSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENFM--PPVPITSPIMNPSGDPQSQGLQQQPSTPG 1026
Cdd:PHA03247  2857 APGGDVRrrPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPerPPQPQAPPPPQPQPQPPPPPQPQPPPPPP 2936

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*...
gi 1318663329 1027 PLSSHASFPQQHLAG-GQPFHGVQQPLAQTGMPPSFSKPNTEGAPGAP 1073
Cdd:PHA03247  2937 PRPQPPLAPTTDPAGaGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAP 2984
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 769-1033 4.59e-09

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: 60.94  E-value: 4.59e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  769 LPDNTNQPNIVQLRDRLCKAQGKPVSGQESSQSPYERQPLSKG--RPGPVAGHSQMPRVQTQQYYPHGENPPPpgFIMQG 846
Cdd:pfam03154  311 PGPSPAAPGQSQQRIHTPPSQSQLQSQQPPREQPLPPAPLSMPhiKPPPTTPIPQLPNPQSHKHPPHLSGPSP--FQMNS 388

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  847 NVIPNPA-APLPTAPGHMPSQLPPYPQPQPYQPAQQYSfgtggAAAYRP---QQPVAPPASNAYPNTPYISPVASYSGQP 922
Cdd:pfam03154  389 NLPPPPAlKPLSSLSTHHPPSAHPPPLQLMPQSQQLPP-----PPAQPPvltQSQSLPPPAASHPPTSGLHQVPSQSPFP 463

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  923 qmytaqQASSPTSSSAASFPPPSSGASFQHGGPGAPPSSSAyalPPGTTGPqngwndppalnrVPKKKKMPenfMPPVPI 1002
Cdd:pfam03154  464 ------QHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSA---SVSSSGP------------VPAAVSCP---LPPVQI 519

                          250       260       270
                   ....*....|....*....|....*....|....*
gi 1318663329 1003 TSPIMNPSGDPQSQGLQQQPSTPGP----LSSHAS 1033
Cdd:pfam03154  520 KEEALDEAEEPESPPPPPRSPSPEPtvvnTPSHAS 554
Sec16_C pfam12931
Sec23-binding domain of Sec16; Sec16 is a multi-domain vesicle coat protein. The C-terminal ...
 572-766 3.54e-07

Sec23-binding domain of Sec16; Sec16 is a multi-domain vesicle coat protein. The C-terminal region is the part that binds to Sec23, a COPII vesicle coat protein. This association is part of the transport vesicle coat structure.


Pssm-ID: 432884  Cd Length: 279  Bit Score: 53.33  E-value: 3.54e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  572 ITRALLTGNFESAVDLCLhDNRM-ADAIILAIAGGQELLAQTQKKY----FAKSQSKITRLItAVVMK----NWREIVE- 641
Cdd:pfam12931    1 IRALLLTGDREKALWLAL-DKKLwAHALLIASTLGKEKWKEVVQEFvrseFKGSNNKSGESL-AALYQvfagNSEEAVDe 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  642 --------SCDLKNWREALAAVLTYAKPDEFSALCDlLGTRLEREGdslLRTQACLCYICAgNVERLVACWTKAQDGSSP 713
Cdd:pfam12931   79 lvppsknaLWALDNWRETLALVLSNRSPGDVEALLA-LGDLLAQYG---RTEAAHICFLLA-GLPLSQTVLLGADHVRFP 153

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1318663329  714 LSLQDLIEkvvilrkAVQLTQ----ALDTNTVGA-------LLAEKMsQYASLLAAQGSIAAAL 766
Cdd:pfam12931  154 STFGNDLE-------SILLTEiyeyALSLSPPQPpfvglphLLPYKL-QHAAVLAEYGLVSEAQ 209
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 894-1026 3.24e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 44.80  E-value: 3.24e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  894 PQQPVAPPASNAYPNTPYIS--PVASYSGQPQMYTAQQAssptsssaasFPPPSsgasfqhgGPGAPPSSSAYALPPgtt 971
Cdd:TIGR01628  383 RQLPMGSPMGGAMGQPPYYGqgPQQQFNGQPLGWPRMSM----------MPTPM--------GPGGPLRPNGLAPMN--- 441

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1318663329  972 gpQNGWNDPPALNRVPKKKKMPENFMPpvpitspimNPSGDPQSQGLQQQPSTPG 1026
Cdd:TIGR01628  442 --AVRAPSRNAQNAAQKPPMQPVMYPP---------NYQSLPLSQDLPQPQSTAS 485
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-332 8.44e-25

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 105.88  E-value: 8.44e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   13 AWSPAQNhpiYLATGtsaqqldatfSTNASLEIFELD-------LSDPSLDMKSCATFSSSHRyhkliwgphkmdskgdv 85
Cdd:cd00200     16 AFSPDGK---LLATG----------SGDGTIKVWDLEtgellrtLKGHTGPVRDVAASADGTY----------------- 65

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   86 sgvLIAGGENGNIILYDPSKiiagdKEVVIAQKDkHTGPVRALDvniFQTN--LVASGANESEIYIWDLNNFATPMTPGA 163
Cdd:cd00200     66 ---LASGSSDKTIRLWDLET-----GECVRTLTG-HTSYVSSVA---FSPDgrILSSSSRDKTIKVWDVETGKCLTTLRG 133

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  164 KTQPpedISCIAWNrQVQHILASASPSGRATVWDLRKNEPIIKVSDHSNRMHCsgLAWHPDvATQMVLASEDDrlpVIQM 243
Cdd:cd00200    134 HTDW---VNSVAFS-PDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNS--VAFSPD-GEKLLSSSSDG---TIKL 203

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  244 WDLRfASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaAS 323
Cdd:cd00200    204 WDLS-TGKCLGTLRGHENGVNSVAFS-PDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLAS-GS 280


                   ....*....
gi 1318663329  324 FDGRISVYS 332
Cdd:cd00200    281 ADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
89-333 1.29e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 104.99  E-value: 1.29e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   89 LIAGGENGNIILYDpskiIAGDKEvvIAQKDKHTGPVRALDVNiFQTNLVASGANESEIYIWDLNNFATPMTPGAKTQPp 168
Cdd:COG2319    177 LASGSDDGTVRLWD----LATGKL--LRTLTGHTGAVRSVAFS-PDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGS- 248

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  169 edISCIAWNRQVQHiLASASPSGRATVWDLRKNEPIIKVSDHSNRMHcsGLAWHPDvATQMVLASEDDRlpvIQMWDLRf 248
Cdd:COG2319    249 --VRSVAFSPDGRL-LASGSADGTVRLWDLATGELLRTLTGHSGGVN--SVAFSPD-GKLLASGSDDGT---VRLWDLA- 318

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  249 ASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaASFDGRI 328
Cdd:COG2319    319 TGKLLRTLTGHTGAVRSVAFS-PDGKTLASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLAS-GSADGTV 396


                   ....*
gi 1318663329  329 SVYSI 333
Cdd:COG2319    397 RLWDL 401
WD40 COG2319
WD40 repeat [General function prediction only];
89-333 4.71e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 99.99  E-value: 4.71e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   89 LIAGGENGNIILYDpskiIAGDKEvvIAQKDKHTGPVRALDvniFQTN--LVASGANESEIYIWDLNNFATPMTPGAKTQ 166
Cdd:COG2319    135 LASGSADGTVRLWD----LATGKL--LRTLTGHSGAVTSVA---FSPDgkLLASGSDDGTVRLWDLATGKLLRTLTGHTG 205

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  167 PpedISCIAWNRQvQHILASASPSGRATVWDLRKNEPIIKVSDHSNRMHCsgLAWHPDvATQMVLASEDDRlpvIQMWDL 246
Cdd:COG2319    206 A---VRSVAFSPD-GKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRS--VAFSPD-GRLLASGSADGT---VRLWDL 275

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  247 RfASSPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaASFDG 326
Cdd:COG2319    276 A-TGELLRTLTGHSGGVNSVAFS-PDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLAS-GSDDG 352


                   ....*..
gi 1318663329  327 RISVYSI 333
Cdd:COG2319    353 TVRLWDL 359
WD40 COG2319
WD40 repeat [General function prediction only];
121-338 6.59e-20

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 93.82  E-value: 6.59e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  121 HTGPVRALDVNiFQTNLVASGANESEIYIWDLnnfATPMTPGAKTQPPEDISCIAWNRQvQHILASASPSGRATVWDLRK 200
Cdd:COG2319     77 HTAAVLSVAFS-PDGRLLASASADGTVRLWDL---ATGLLLRTLTGHTGAVRSVAFSPD-GKTLASGSADGTVRLWDLAT 151

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  201 NEPIIKVSDHSNRMHCsgLAWHPDvATQMVLASEDDRlpvIQMWDLRfASSPLRVLENHARGILAVAWSmADPELLLSCG 280
Cdd:COG2319    152 GKLLRTLTGHSGAVTS--VAFSPD-GKLLASGSDDGT---VRLWDLA-TGKLLRTLTGHTGAVRSVAFS-PDGKLLASGS 223

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1318663329  281 KDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPrNPAVLSAASFDGRISVYSIMGGSI 338
Cdd:COG2319    224 ADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDLATGEL 280
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 171-337 1.08e-16

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 82.00  E-value: 1.08e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  171 ISCIAWNRQvQHILASASPSGRATVWDLRKNEPIIKVSDHSNRMhcSGLAWHPDvATQMVLASEDDrlpVIQMWDLRfAS 250
Cdd:cd00200     12 VTCVAFSPD-GKLLATGSGDGTIKVWDLETGELLRTLKGHTGPV--RDVAASAD-GTYLASGSSDK---TIRLWDLE-TG 83

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  251 SPLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPrNPAVLSAASFDGRISV 330
Cdd:cd00200     84 ECVRTLTGHTSYVSSVAFS-PDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSP-DGTFVASSSQDGTIKL 161


                   ....*..
gi 1318663329  331 YSIMGGS 337
Cdd:cd00200    162 WDLRTGK 168
ACE1-Sec16-like cd09233
Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat ...
 572-766 1.73e-09

Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; COPII coat complex plays an important role in vesicular traffic of newly synthezised proteins from the endoplasmatic reticulum (ER) to the Golgi apparatus by mediating the formation of transport vesicles. COPII consists of an outer coat, made up of the scaffold proteins Sec31 and Sec13, and the cargo adaptor complex, Sec23 and Sec24, which are recruited by the small GTPase Sar1. Sec16 is involved in the early steps of the assembly process. Sec16 forms elongated heterotetramers with Sec13, Sec13-(Sec16)2-Sec13. It interacts with Sec13 by insertion of a single beta-blade to close the six-bladded beta propeller of Sec13. In the same way Sec13 interacts with Sec31 and Nup145C, a nuclear pore protein, all of these contain a structurally related ancestral coatomer element 1 (ACE1). Sec16 is believed to be a key component in maintaining the integrity of the ER exit site.


Pssm-ID: 187750 [Multi-domain]  Cd Length: 314  Bit Score: 60.73  E-value: 1.73e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  572 ITRALLTGNFESAVDLCLhDNRM-ADAIILAIAGGQELLAQTQKKyFAKSQSKIT---RLITAVVMKNWREIVESC---- 643
Cdd:cd09233     69 FRNLLLTGNRKEALELAL-DNGLwAHALLLASSLGKETWAEVVSR-FARSESKLNdplQTLYQLFSGNSPEAITELadnp 146

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  644 -----DLKNWREALAAVLTYAKPD-EFSALCdLLGTRLEREGDSLlrtQACLCYICAGnverlvacwtkAQDGSSPLS-- 715
Cdd:cd09233    147 aeaewALGNWREHLAIILSNRTSNlDLEALV-ELGDLLAQRGLVE---AAHICYLLAG-----------VPLGPYPSSps 211

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1318663329  716 -----LQDLIEKVVILR--KAVQLT------QALDTNTVG--ALLAEKMsQYASLLAAQGSIAAAL 766
Cdd:cd09233    212 scllgGAVHNKSPRTFAtpEAIQLTeiyeyaLSLGNPQFGlpHLQPYKL-IHAARLAELGLVSEAL 276
WD40 COG2319
WD40 repeat [General function prediction only];
89-247 3.32e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 60.31  E-value: 3.32e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329   89 LIAGGENGNIILYDpskiIAGDKEVVIaqKDKHTGPVRALDVNiFQTNLVASGANESEIYIWDLNNFATPMTPGAKTqpp 168
Cdd:COG2319    261 LASGSADGTVRLWD----LATGELLRT--LTGHSGGVNSVAFS-PDGKLLASGSDDGTVRLWDLATGKLLRTLTGHT--- 330

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  169 EDISCIAWNRQVQhILASASPSGRATVWDLRKNEPIIKVSDHSNRMHcsGLAWHPD---VATqmvlASEDDRlpvIQMWD 245
Cdd:COG2319    331 GAVRSVAFSPDGK-TLASGSDDGTVRLWDLATGELLRTLTGHTGAVT--SVAFSPDgrtLAS----GSADGT---VRLWD 400


                   ..
gi 1318663329  246 LR 247
Cdd:COG2319    401 LA 402
PHA03247 PHA03247
large tegument protein UL36; Provisional
 792-1073 3.66e-09

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 61.49  E-value: 3.66e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  792 PVSGQESSQSPYERQPLSKGRPGPVAGHSQMPRVQTQQYYPhgenPPPPGFIMQGNVIPNPAAPLPTAPGH-MPSQLPPY 870
Cdd:PHA03247  2702 PPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPP----AVPAGPATPGGPARPARPPTTAGPPApAPPAAPAA 2777

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  871 PQPQPYQPAQQYSFGTGGAAAYRPQQPVAPPASNAYPNTPYISPVASYSGQPQMYTAQQASSPTSSSAASfPPPSSGASF 950
Cdd:PHA03247  2778 GPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPP-PSLPLGGSV 2856

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  951 QHGGPGA--PPSSSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENFM--PPVPITSPIMNPSGDPQSQGLQQQPSTPG 1026
Cdd:PHA03247  2857 APGGDVRrrPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPerPPQPQAPPPPQPQPQPPPPPQPQPPPPPP 2936

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*...
gi 1318663329 1027 PLSSHASFPQQHLAG-GQPFHGVQQPLAQTGMPPSFSKPNTEGAPGAP 1073
Cdd:PHA03247  2937 PRPQPPLAPTTDPAGaGEPSGAVPQPWLGALVPGRVAVPRFRVPQPAP 2984
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 769-1033 4.59e-09

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: 60.94  E-value: 4.59e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  769 LPDNTNQPNIVQLRDRLCKAQGKPVSGQESSQSPYERQPLSKG--RPGPVAGHSQMPRVQTQQYYPHGENPPPpgFIMQG 846
Cdd:pfam03154  311 PGPSPAAPGQSQQRIHTPPSQSQLQSQQPPREQPLPPAPLSMPhiKPPPTTPIPQLPNPQSHKHPPHLSGPSP--FQMNS 388

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  847 NVIPNPA-APLPTAPGHMPSQLPPYPQPQPYQPAQQYSfgtggAAAYRP---QQPVAPPASNAYPNTPYISPVASYSGQP 922
Cdd:pfam03154  389 NLPPPPAlKPLSSLSTHHPPSAHPPPLQLMPQSQQLPP-----PPAQPPvltQSQSLPPPAASHPPTSGLHQVPSQSPFP 463

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  923 qmytaqQASSPTSSSAASFPPPSSGASFQHGGPGAPPSSSAyalPPGTTGPqngwndppalnrVPKKKKMPenfMPPVPI 1002
Cdd:pfam03154  464 ------QHPFVPGGPPPITPPSGPPTSTSSAMPGIQPPSSA---SVSSSGP------------VPAAVSCP---LPPVQI 519

                          250       260       270
                   ....*....|....*....|....*....|....*
gi 1318663329 1003 TSPIMNPSGDPQSQGLQQQPSTPGP----LSSHAS 1033
Cdd:pfam03154  520 KEEALDEAEEPESPPPPPRSPSPEPtvvnTPSHAS 554
Med15 pfam09606
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 788-1137 6.19e-09

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 60.41  E-value: 6.19e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  788 AQGKPVSGQESSQSPYERQPLSK----GRPGPVAGHSQMPrvqtQQYYPHGENPPPPGFIMQGNVIPNPAAPLPTApghm 863
Cdd:pfam09606  181 GQGQAGGMNGGQQGPMGGQMPPQmgvpGMPGPADAGAQMG----QQAQANGGMNPQQMGGAPNQVAMQQQQPQQQG---- 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  864 psqlPPYPQPQPYQPAQQYSFGTGGAA-AYRPQQPVAPPasnayPNTPYISPVASYSGQPQMYTAQQASSPTSSSAASFP 942
Cdd:pfam09606  253 ----QQSQLGMGINQMQQMPQGVGGGAgQGGPGQPMGPP-----GQQPGAMPNVMSIGDQNNYQQQQTRQQQQQQGGNHP 323

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  943 PPSSGASFQHGGPGAPPSSSAYALPPGTTGPQN--GWNDPPALNRVPKKKKMPEnfmpPVPITSPI-MNPsgdPQSQGLQ 1019
Cdd:pfam09606  324 AAHQQQMNQSVGQGGQVVALGGLNHLETWNPGNfgGLGANPMQRGQPGMMSSPS----PVPGQQVRqVTP---NQFMRQS 396

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329 1020 QQPSTPGPLSSHASFPQQHLAGGQPF-HGVQQPLAQTG-MPPSFSKPNTEGaPGAPIGNTIQ---------HVQALPTEK 1088
Cdd:pfam09606  397 PQPSVPSPQGPGSQPPQSHPGGMIPSpALIPSPSPQMSqQPAQQRTIGQDS-PGGSLNTPGQsavnsplnpQEEQLYREK 475

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1318663329 1089 ---ITKKPIPEEHLILKTTfedliqrclssaTDPQTKRKLDDASKRLEFLYD 1137
Cdd:pfam09606  476 yrqLTKYIEPLKRMIAKME------------NDPGDIDKMNKMKRLLEILSN 515
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 806-1080 2.04e-07

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: 55.54  E-value: 2.04e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  806 QPLSKGRPGPvaghsQMPRVQTQQYYPHGENPPPPGFIMQGNVI---PNPAAPLPTAPGHMPSQLPPYPQPQPYQPAQQY 882
Cdd:pfam03154  250 QPMTQPPPPS-----QVSPQPLPQPSLHGQMPPMPHSLQTGPSHmqhPVPPQPFPLTPQSSQSQVPPGPSPAAPGQSQQR 324

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  883 SFGTGGAAAYRPQQPVA----PPASNAYPNT--PYISPVASY-SGQPQMYTAQQASSPTSSSAASFPPPS-----SGASF 950
Cdd:pfam03154  325 IHTPPSQSQLQSQQPPReqplPPAPLSMPHIkpPPTTPIPQLpNPQSHKHPPHLSGPSPFQMNSNLPPPPalkplSSLST 404

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  951 QHGGPGAPPS----------SSAYALPPGTTGPQN----GWNDPP--ALNRVPKKKKMPEN-FMP--PVPITSPIMNPSG 1011
Cdd:pfam03154  405 HHPPSAHPPPlqlmpqsqqlPPPPAQPPVLTQSQSlpppAASHPPtsGLHQVPSQSPFPQHpFVPggPPPITPPSGPPTS 484

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1318663329 1012 DPQSQGLQQQPSTpGPLSSHASFPQQHLAGGQPFHGVQQPLAQTGMPPSFSKPNTEGAPGAPIGNTIQH 1080
Cdd:pfam03154  485 TSSAMPGIQPPSS-ASVSSSGPVPAAVSCPLPPVQIKEEALDEAEEPESPPPPPRSPSPEPTVVNTPSH 552
Sec16_C pfam12931
Sec23-binding domain of Sec16; Sec16 is a multi-domain vesicle coat protein. The C-terminal ...
 572-766 3.54e-07

Sec23-binding domain of Sec16; Sec16 is a multi-domain vesicle coat protein. The C-terminal region is the part that binds to Sec23, a COPII vesicle coat protein. This association is part of the transport vesicle coat structure.


Pssm-ID: 432884  Cd Length: 279  Bit Score: 53.33  E-value: 3.54e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  572 ITRALLTGNFESAVDLCLhDNRM-ADAIILAIAGGQELLAQTQKKY----FAKSQSKITRLItAVVMK----NWREIVE- 641
Cdd:pfam12931    1 IRALLLTGDREKALWLAL-DKKLwAHALLIASTLGKEKWKEVVQEFvrseFKGSNNKSGESL-AALYQvfagNSEEAVDe 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  642 --------SCDLKNWREALAAVLTYAKPDEFSALCDlLGTRLEREGdslLRTQACLCYICAgNVERLVACWTKAQDGSSP 713
Cdd:pfam12931   79 lvppsknaLWALDNWRETLALVLSNRSPGDVEALLA-LGDLLAQYG---RTEAAHICFLLA-GLPLSQTVLLGADHVRFP 153

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1318663329  714 LSLQDLIEkvvilrkAVQLTQ----ALDTNTVGA-------LLAEKMsQYASLLAAQGSIAAAL 766
Cdd:pfam12931  154 STFGNDLE-------SILLTEiyeyALSLSPPQPpfvglphLLPYKL-QHAAVLAEYGLVSEAQ 209
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 252-336 2.49e-06

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 50.80  E-value: 2.49e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  252 PLRVLENHARGILAVAWSmADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSaASFDGRISVY 331
Cdd:cd00200      1 LRRTLKGHTGGVTCVAFS-PDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLAS-GSSDKTIRLW 78


                   ....*
gi 1318663329  332 SIMGG 336
Cdd:cd00200     79 DLETG 83
PHA03247 PHA03247
large tegument protein UL36; Provisional
 790-1099 2.50e-06

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 52.25  E-value: 2.50e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  790 GKPVSGQESSQSPYERQPLSKGRPGPVAGHSQMPRVQTQQYYPHGENPPPPGFimQGNVIPNPAAPL-----PTAPGHMP 864
Cdd:PHA03247  2631 PSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRP--RRRAARPTVGSLtsladPPPPPPTP 2708

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  865 SQLPpypqpQPYQPAQQYSFGTGGAAAYRPQQPVApPASNAYPNTPYISPVASYSGQPQMyTAQQASSPTSSSAASFPPP 944
Cdd:PHA03247  2709 EPAP-----HALVSATPLPPGPAAARQASPALPAA-PAPPAVPAGPATPGGPARPARPPT-TAGPPAPAPPAAPAAGPPR 2781

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  945 S----SGASFQHGGPGAPPSSSAYALPPGTTGPQNGWND--------PPALNRVPKKKKMPENFMPPVPITSPIMNPSGD 1012
Cdd:PHA03247  2782 RltrpAVASLSESRESLPSPWDPADPPAAVLAPAAALPPaaspagplPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGD 2861

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329 1013 PQSQGLQQQPSTPGPLSSHAsfPQQHLAGGQPfhgVQQPLAQTGMPPSFSKPNTEGAPGAPIGNTIQHVQALPTEKITKK 1092
Cdd:PHA03247  2862 VRRRPPSRSPAAKPAAPARP--PVRRLARPAV---SRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPP 2936


                   ....*..
gi 1318663329 1093 PIPEEHL 1099
Cdd:PHA03247  2937 PRPQPPL 2943
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 819-1098 4.06e-06

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: 51.31  E-value: 4.06e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  819 HSQMPRVQTQQYYPHGENPPPPGFIMQGNVIPNPAAPLPTAPGHMPSQLPPYPqpqpyqpaqqysfgtggaaayrpQQPV 898
Cdd:pfam03154  168 QTQPPVLQAQSGAASPPSPPPPGTTQAATAGPTPSAPSVPPQGSPATSQPPNQ-----------------------TQST 224

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  899 APPASnAYPNTPYISPVASYSGQPQMYTAQQassptsssaasfPPPSSGASFQhggpGAPPSSSAYALPPGTTGPQNGwn 978
Cdd:pfam03154  225 AAPHT-LIQQTPTLHPQRLPSPHPPLQPMTQ------------PPPPSQVSPQ----PLPQPSLHGQMPPMPHSLQTG-- 285

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  979 dppalnrvpkkkkmPENFMPPVPiTSPIMNPSGDPQSQGlqqqPSTPGPLSSHASFPQQHLAGGQPFHGVQQPLAQTGMP 1058
Cdd:pfam03154  286 --------------PSHMQHPVP-PQPFPLTPQSSQSQV----PPGPSPAAPGQSQQRIHTPPSQSQLQSQQPPREQPLP 346

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|
gi 1318663329 1059 PsfskpntegapgAPIgnTIQHVQALPTEKITKKPIPEEH 1098
Cdd:pfam03154  347 P------------APL--SMPHIKPPPTTPIPQLPNPQSH 372
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 890-1054 8.98e-05

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 46.95  E-value: 8.98e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  890 AAYRPQQPVAPPAsnaypntpyisPVASYSGQPQMYTAQQASSPTSssaasFPPPSSGASFQHGGPGAPPSSSAYALPPG 969
Cdd:pfam09770  201 AAMRAQAKKPAQQ-----------PAPAPAQPPAAPPAQQAQQQQQ-----FPPQIQQQQQPQQQPQQPQQHPGQGHPVT 264

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  970 T-TGPQNGWNDPPALNRVPKKKKMPENfMPPVPI--TSPIMNPS--GDPQSQGLQQQPSTPGPLSSHASFPQQHLAGGQ- 1043
Cdd:pfam09770  265 IlQRPQSPQPDPAQPSIQPQAQQFHQQ-PPPVPVqpTQILQNPNrlSAARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQa 343

                          170
                   ....*....|.
gi 1318663329 1044 PFHGVQQPLAQ 1054
Cdd:pfam09770  344 PIITHPQQLAQ 354
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 791-1070 2.31e-04

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 45.46  E-value: 2.31e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  791 KPVSGQESSQSPYERQPLSKGRPGPVAGHSQMPRVQTQQYYPHGENPPPPGFIMQGNVIPNPAAPLPTAPGHMPSQLPPY 870
Cdd:PRK10263   355 QPTVAWQPVPGPQTGEPVIAPAPEGYPQQSQYAQPAVQYNEPLQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYY 434

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  871 PQPQPYQPaqqysfgTGGAAAYRPQQPVAPPASNAYPNTPYISPVAsysgQPQMYTAQQASSPTSSSAasfPPPssgaSF 950
Cdd:PRK10263   435 APAPEQPV-------AGNAWQAEEQQSTFAPQSTYQTEQTYQQPAA----QEPLYQQPQPVEQQPVVE---PEP----VV 496

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  951 QHGGPGAPPSSSAYALPPGTTGPQN---GWNDPpalnrVPKKKKMPENFMPPVPITSPIMNP------SGDPQSQGLQQQ 1021
Cdd:PRK10263   497 EETKPARPPLYYFEEVEEKRAREREqlaAWYQP-----IPEPVKEPEPIKSSLKAPSVAAVPpveaaaAVSPLASGVKKA 571

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*....
gi 1318663329 1022 PSTPGPLSSHASfPQQHLAGGqpfhGVQQPLAQTGMPPSFSKPNTEGAP 1070
Cdd:PRK10263   572 TLATGAAATVAA-PVFSLANS----GGPRPQVKEGIGPQLPRPKRIRVP 615
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 894-1026 3.24e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 44.80  E-value: 3.24e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  894 PQQPVAPPASNAYPNTPYIS--PVASYSGQPQMYTAQQAssptsssaasFPPPSsgasfqhgGPGAPPSSSAYALPPgtt 971
Cdd:TIGR01628  383 RQLPMGSPMGGAMGQPPYYGqgPQQQFNGQPLGWPRMSM----------MPTPM--------GPGGPLRPNGLAPMN--- 441

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1318663329  972 gpQNGWNDPPALNRVPKKKKMPENFMPpvpitspimNPSGDPQSQGLQQQPSTPG 1026
Cdd:TIGR01628  442 --AVRAPSRNAQNAAQKPPMQPVMYPP---------NYQSLPLSQDLPQPQSTAS 485
PHA03247 PHA03247
large tegument protein UL36; Provisional
 837-1075 1.30e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.39  E-value: 1.30e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  837 PPPPGfiMQGNVIPNPAAPLPTAPG-----HMPSQLppypqpqpyqpaqqysfgtggAAAYRPQQPVAPPASNAYPNTPY 911
Cdd:PHA03247  2559 APPAA--PDRSVPPPRPAPRPSEPAvtsraRRPDAP---------------------PQSARPRAPVDDRGDPRGPAPPS 2615

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  912 ISPVASYSGQPQMYTAQQASSPTSSSAASFPPPSSGASFQHGGPGAPPSSSAYAL--PPGTTGPQNGWNdPPALNrvPKK 989
Cdd:PHA03247  2616 PLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLgrAAQASSPPQRPR-RRAAR--PTV 2692

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  990 KKMPENFMPPVPITSPimNPSGDPQSQGLqqqPSTPGPLSSHASFPQQHLAGGQPF--HGVQQPLAQT--GMPPSFSKPN 1065
Cdd:PHA03247  2693 GSLTSLADPPPPPPTP--EPAPHALVSAT---PLPPGPAAARQASPALPAAPAPPAvpAGPATPGGPArpARPPTTAGPP 2767

                          250
                   ....*....|
gi 1318663329 1066 TEGAPGAPIG 1075
Cdd:PHA03247  2768 APAPPAAPAA 2777
PHA03378 PHA03378
EBNA-3B; Provisional
 807-1087 1.45e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 43.13  E-value: 1.45e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  807 PLSKGRPGPVAGHSQMPRVQTQQYYPhGENPPPPGFIMQGNVIPNPAAPLPTAP--------GHMPSQLPPYPQPQPYQP 878
Cdd:PHA03378   590 PSYAQTPWPVPHPSQTPEPPTTQSHI-PETSAPRQWPMPLRPIPMRPLRMQPITfnvlvfptPHQPPQVEITPYKPTWTQ 668

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  879 AQQYSFG--TGGAAAYRPQQ--------------PVAPPASnayPNTPYISPVASYSGQPQMYTAQQASSPTSSSAASFP 942
Cdd:PHA03378   669 IGHIPYQpsPTGANTMLPIQwapgtmqpppraptPMRPPAA---PPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRAR 745

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  943 PPSSGASFQHGGPGAPPSSSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENfMPPVPITSPIMNPSGDPQSQGLQQQ- 1021
Cdd:PHA03378   746 PPAAAPGRARPPAAAPGRARPPAAAPGAPTPQPPPQAPPAPQQRPRGAPTPQP-PPQAGPTSMQLMPRAAPGQQGPTKQi 824

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329 1022 -------------PSTPGPLS---SHASFPQQHLAGGQPFHGVQQPLAqtgMPPSFSKPNTEGAPGAPIGNTIQHVQALP 1085
Cdd:PHA03378   825 lrqlltggvkrgrPSLKKPAAlerQAAAGPTPSPGSGTSDKIVQAPVF---YPPVLQPIQVMRQLGSVRAAAASTVTQAP 901


                   ..
gi 1318663329 1086 TE 1087
Cdd:PHA03378   902 TE 903
PHA03379 PHA03379
EBNA-3A; Provisional
 788-1073 2.40e-03

EBNA-3A; Provisional


Pssm-ID: 223066 [Multi-domain]  Cd Length: 935  Bit Score: 42.35  E-value: 2.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  788 AQGKPVSGQESSQSPYERQPLSKGRPGPV-----AGH---------SQMPRVQTQQYYPH---GENPPPPGFIMQGNVIP 850
Cdd:PHA03379   468 AQLPPGPLQDLEPGDQLPGVVQDGRPACApvpapAGPivrpweaslSQVPGVAFAPVMPQpmpVEPVPVPTVALERPVCP 547

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  851 NPAAPLPTAPGHMPSQLPPYPQPQPYQ-------PAQQYSFgTGGAAAYRPQ-QPVAPPASNAYPNTPYISPVASYSG-- 920
Cdd:PHA03379   548 APPLIAMQGPGETSGIVRVRERWRPAPwtpnpprSPSQMSV-RDRLARLRAEaQPYQASVEVQPPQLTQVSPQQPMEYpl 626

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  921 --QPQMYT----AQQASSPTSSSAASFPPPSSGASFQH----GGPGAPPSSSAYALPP-GTTGPQngWNDppalnrvpkk 989
Cdd:PHA03379   627 epEQQMFPgspfSQVADVMRAGGVPAMQPQYFDLPLQQpisqGAPLAPLRASMGPVPPvPATQPQ--YFD---------- 694

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  990 kkmpenfmppVPITSPImnPSGDPQSQGLQQQPSTPGPLSSHASFPqqhlaGGQPFHGVQQPLAQT---GMPpsFSKPNT 1066
Cdd:PHA03379   695 ----------IPLTEPI--NQGASAAHFLPQQPMEGPLVPERWMFQ-----GATLSQSVRPGVAQSqyfDLP--LTQPIN 755


                   ....*..
gi 1318663329 1067 EGAPGAP 1073
Cdd:PHA03379   756 HGAPAAH 762
DUF4813 pfam16072
Domain of unknown function (DUF4813); This family of proteins is functionally uncharacterized. ...
 886-982 2.96e-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: 2.96e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  886 TGGAAAYRPQQPVAPPASNAYPNTPYISPVASYSGQPQMYTAQQASSPtsssaasfPPPSSGASFQHGGPGAPPSSSAYA 965
Cdd:pfam16072  163 AGGQQPAAPAAPAYPVAPAAYPAQAPAAAPAPAPGAPQTPLAPLNPVA--------AAPAAAAGAAAAPVVAAAAPAAAA 234

                           90
                   ....*....|....*..
gi 1318663329  966 LPPGTTGPQNGWNDPPA 982
Cdd:pfam16072  235 PPPPAPAAPPADAAPPA 251
DUF3824 pfam12868
Domain of unknwon function (DUF3824); This is a repeating domain found in fungal proteins. It ...
 794-910 3.27e-03

Domain of unknwon function (DUF3824); This is a repeating domain found in fungal proteins. It is proline-rich, and the function is not known.


Pssm-ID: 372351 [Multi-domain]  Cd Length: 145  Bit Score: 39.34  E-value: 3.27e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  794 SGQESSQSPYERQPLSKGRPGPVAGHsqmprvqtQQYYPHGEN-PPPPGFIMQGNVIPNPAAPL-PTAPGHMPSqlppyp 871
Cdd:pfam12868   47 DYRDYYEDPYSPSPYPPSPAGPYASQ--------GQYYPETNYfPPPPGSTPQPPVDPQPNAPPpPYNPADYPP------ 112

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1318663329  872 qpqpyqpaqqysfGTGGAAAYRPQQPVAPPASNAYPNTP 910
Cdd:pfam12868  113 -------------PPGAAPPPQPYQYPPPPGPDPYAPRP 138
PHA03379 PHA03379
EBNA-3A; Provisional
 798-1095 6.81e-03

EBNA-3A; Provisional


Pssm-ID: 223066 [Multi-domain]  Cd Length: 935  Bit Score: 40.81  E-value: 6.81e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  798 SSQSPyERQPLSKGRPGPVAGHSQMPRVQTQQYYPHGENPPPPGFIMQGNVI-PNPA-APLPTAPGHMpsqlppypqpqp 875
Cdd:PHA03379   439 SAQVP-EPPPVHDLEPGPLHDQHSMAPCPVAQLPPGPLQDLEPGDQLPGVVQdGRPAcAPVPAPAGPI------------ 505

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  876 yqpaqqysfgtggaaaYRPQQPvappasnAYPNTPYISPvASYSGQPqMYTAQQASSPTSSSAASFPPPSSGASfqhGGP 955
Cdd:PHA03379   506 ----------------VRPWEA-------SLSQVPGVAF-APVMPQP-MPVEPVPVPTVALERPVCPAPPLIAM---QGP 557

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  956 GAPPS----SSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENFMPPVPITSPIMnpsgdpqSQGLQQQPSTpGPLSsh 1031
Cdd:PHA03379   558 GETSGivrvRERWRPAPWTPNPPRSPSQMSVRDRLARLRAEAQPYQASVEVQPPQL-------TQVSPQQPME-YPLE-- 627

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1318663329 1032 asfPQQHLAGGQPFHGVQQPLAQTGM----PPSFS----KPNTEGAPGAPIGNTIQHVQALPTEKITKKPIP 1095
Cdd:PHA03379   628 ---PEQQMFPGSPFSQVADVMRAGGVpamqPQYFDlplqQPISQGAPLAPLRASMGPVPPVPATQPQYFDIP 696
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 954-1054 8.68e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 40.45  E-value: 8.68e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  954 GPGAP---PSSSAYALPPGTTGPQNGWNDPPALNRVPKKKKMPENFMPPVPITSPIMNPSGDPQSQGLQQQPSTPGPLSS 1030
Cdd:PRK10263   739 GPHEPlftPIVEPVQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQ 818

                           90       100
                   ....*....|....*....|....
gi 1318663329 1031 HasfPQQHLAGGQPFHGVQQPLAQ 1054
Cdd:PRK10263   819 Q---PQQPVAPQPQYQQPQQPVAP 839
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
814-1053 8.95e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 40.24  E-value: 8.95e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  814 GPVAghSQMPRVQTQQYYPHGENPPPPgfimqgnVIPNPAAPLPTAPGHMPSQLPPYPQPQPYQPAQQYSFGTGGAAAYR 893
Cdd:PRK12323   380 APVA--QPAPAAAAPAAAAPAPAAPPA-------APAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPAP 450

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  894 PQQPVAPPASNAYPNTPYISPVASYSGQPQmytAQQASSPTSSSAASFPPPSSGASFQHGGPGAPPSSSAYALPPGTTGP 973
Cdd:PRK12323   451 APAPAAAPAAAARPAAAGPRPVAAAAAAAP---ARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGWVAESIP 527

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1318663329  974 QNGWNDPPAlNRVPKKKKMPENFMPPVPITSPIMNPSGDPQsqglQQQPSTPGplSSHASFPQqhLAGGQPFHGVQQPLA 1053
Cdd:PRK12323   528 DPATADPDD-AFETLAPAPAAAPAPRAAAATEPVVAPRPPR----ASASGLPD--MFDGDWPA--LAARLPVRGLAQQLA 598
 
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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