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Conserved domains on  [gi|1720424509|ref|XP_030098932|]
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mediator of RNA polymerase II transcription subunit 25 isoform X11 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 294-443 1.08e-78

Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear.


:

Pssm-ID: 463243  Cd Length: 154  Bit Score: 246.10  E-value: 1.08e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424509 370 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 443
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_VWA super family cl48110
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 1-123 5.02e-60

Mediator complex subunit 25 von Willebrand factor type A; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex.


The actual alignment was detected with superfamily member pfam11265:

Pssm-ID: 463253  Cd Length: 213  Bit Score: 199.45  E-value: 5.02e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1720424509  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 531-619 1.81e-35

Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and this C-terminal NR box-containing domain (646-650) from C69-747. The NR box of MED25 is critical for its recruitment to the promoter, probably through an interaction with pre bound RAR.


:

Pssm-ID: 463246 [Multi-domain]  Cd Length: 89  Bit Score: 128.62  E-value: 1.81e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 531 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 1720424509 611 EDDILMDLI 619
Cdd:pfam11244  81 EDDILMDLI 89
Med25_SD1 super family cl25802
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-281 1.16e-26

Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, this SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This The function of the SD domains is unclear.


The actual alignment was detected with superfamily member pfam11235:

Pssm-ID: 463244 [Multi-domain]  Cd Length: 157  Bit Score: 106.02  E-value: 1.16e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424509 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSlQAGTVTPGGVNGPSAAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPS-MAGTVAPGGVSGPSPAQ 157
PAT1 super family cl37801
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 460-587 2.17e-03

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


The actual alignment was detected with superfamily member pfam09770:

Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 41.17  E-value: 2.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLlnPAPPQTGVPPPQAS 539
Cdd:pfam09770 219 AQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQ--PQAQQFHQQPPPVP 296

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1720424509 540 LHHLQPPGAPTLLPPHQsMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 587
Cdd:pfam09770 297 VQPTQILQNPNRLSAAR-VGYPQNPQPGVQPAPAHQAHRQQGSFGRQA 343
 
Name Accession Description Interval E-value
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 294-443 1.08e-78

Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear.


Pssm-ID: 463243  Cd Length: 154  Bit Score: 246.10  E-value: 1.08e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424509 370 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 443
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 1-123 5.02e-60

Mediator complex subunit 25 von Willebrand factor type A; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex.


Pssm-ID: 463253  Cd Length: 213  Bit Score: 199.45  E-value: 5.02e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1720424509  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 531-619 1.81e-35

Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and this C-terminal NR box-containing domain (646-650) from C69-747. The NR box of MED25 is critical for its recruitment to the promoter, probably through an interaction with pre bound RAR.


Pssm-ID: 463246 [Multi-domain]  Cd Length: 89  Bit Score: 128.62  E-value: 1.81e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 531 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 1720424509 611 EDDILMDLI 619
Cdd:pfam11244  81 EDDILMDLI 89
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-281 1.16e-26

Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, this SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This The function of the SD domains is unclear.


Pssm-ID: 463244 [Multi-domain]  Cd Length: 157  Bit Score: 106.02  E-value: 1.16e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424509 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSlQAGTVTPGGVNGPSAAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPS-MAGTVAPGGVSGPSPAQ 157
PHA03378 PHA03378
EBNA-3B; Provisional
 526-611 4.21e-04

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 43.52  E-value: 4.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 526 PAPPQTGVPPPQASLHHLQPP-GAPTLLPPHQS----MGQPQLGPQLLHPP---PAQSWPTQLPQRAPLPGQMLlSGGPr 597
Cdd:PHA03378  717 PAAATGRARPPAAAPGRARPPaAAPGRARPPAAapgrARPPAAAPGRARPPaaaPGAPTPQPPPQAPPAPQQRP-RGAP- 794

                          90
                  ....*....|....
gi 1720424509 598 GPVPQPGLQPSVME 611
Cdd:PHA03378  795 TPQPPPQAGPTSMQ 808
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 460-587 2.17e-03

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: 41.17  E-value: 2.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLlnPAPPQTGVPPPQAS 539
Cdd:pfam09770 219 AQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQ--PQAQQFHQQPPPVP 296

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1720424509 540 LHHLQPPGAPTLLPPHQsMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 587
Cdd:pfam09770 297 VQPTQILQNPNRLSAAR-VGYPQNPQPGVQPAPAHQAHRQQGSFGRQA 343
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 508-608 4.36e-03

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: 40.18  E-value: 4.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 508 LRPQNPGANPQLRSL-LLNPAPPQTGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQ-----LGPQLLHPPPAQSWPT--- 578
Cdd:TIGR01628 371 LQDQFMQLQPRMRQLpMGSPMGGAMGQPPYYGQGPQQQFNGQPLGWPRMSMMPTPMgpggpLRPNGLAPMNAVRAPSrna 450

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1720424509 579 -QLPQRAPLPGQMLLSGGPRGPVPQPGLQPS 608
Cdd:TIGR01628 451 qNAAQKPPMQPVMYPPNYQSLPLSQDLPQPQ 481
 
Name Accession Description Interval E-value
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 294-443 1.08e-78

Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear.


Pssm-ID: 463243  Cd Length: 154  Bit Score: 246.10  E-value: 1.08e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720424509 370 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 443
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 1-123 5.02e-60

Mediator complex subunit 25 von Willebrand factor type A; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex.


Pssm-ID: 463253  Cd Length: 213  Bit Score: 199.45  E-value: 5.02e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1720424509  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 531-619 1.81e-35

Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and this C-terminal NR box-containing domain (646-650) from C69-747. The NR box of MED25 is critical for its recruitment to the promoter, probably through an interaction with pre bound RAR.


Pssm-ID: 463246 [Multi-domain]  Cd Length: 89  Bit Score: 128.62  E-value: 1.81e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 531 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 1720424509 611 EDDILMDLI 619
Cdd:pfam11244  81 EDDILMDLI 89
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-281 1.16e-26

Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, this SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This The function of the SD domains is unclear.


Pssm-ID: 463244 [Multi-domain]  Cd Length: 157  Bit Score: 106.02  E-value: 1.16e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720424509 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSlQAGTVTPGGVNGPSAAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPS-MAGTVAPGGVSGPSPAQ 157
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 460-606 3.74e-07

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: 53.50  E-value: 3.74e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQGAVGASAATGQP-------------QPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNP 526
Cdd:pfam09770 174 APAPQPAAQPASLPAPSRKmmsleeveaamraQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQP 253

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 527 APPQTGVPPPQAslhhLQPPGAPTLlPPHQSMGQPQLGPQLLHPPPAQSWPTQL---PQRAPLPGQMLLSGGPRGPVPQP 603
Cdd:pfam09770 254 QQHPGQGHPVTI----LQRPQSPQP-DPAQPSIQPQAQQFHQQPPPVPVQPTQIlqnPNRLSAARVGYPQNPQPGVQPAP 328


                  ...
gi 1720424509 604 GLQ 606
Cdd:pfam09770 329 AHQ 331
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 460-603 2.15e-04

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


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 44.37  E-value: 2.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQGAVGASAATGQP---------QPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQ 530
Cdd:pfam03154 181 ASPPSPPPPGTTQAATAGPtpsapsvppQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQRLPSPHPPLQPMTQPPPPSQ 260

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 531 TGVPP-PQASLH---------------HLQPPGAPTLLPPHQSMGQPQ--LGPQLLHPPPAQSWPTQLPQRAPLPGQMLL 592
Cdd:pfam03154 261 VSPQPlPQPSLHgqmppmphslqtgpsHMQHPVPPQPFPLTPQSSQSQvpPGPSPAAPGQSQQRIHTPPSQSQLQSQQPP 340

                         170
                  ....*....|.
gi 1720424509 593 SGGPRGPVPQP 603
Cdd:pfam03154 341 REQPLPPAPLS 351
PHA03378 PHA03378
EBNA-3B; Provisional
 526-611 4.21e-04

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 43.52  E-value: 4.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 526 PAPPQTGVPPPQASLHHLQPP-GAPTLLPPHQS----MGQPQLGPQLLHPP---PAQSWPTQLPQRAPLPGQMLlSGGPr 597
Cdd:PHA03378  717 PAAATGRARPPAAAPGRARPPaAAPGRARPPAAapgrARPPAAAPGRARPPaaaPGAPTPQPPPQAPPAPQQRP-RGAP- 794

                          90
                  ....*....|....
gi 1720424509 598 GPVPQPGLQPSVME 611
Cdd:PHA03378  795 TPQPPPQAGPTSMQ 808
PHA03247 PHA03247
large tegument protein UL36; Provisional
 460-608 1.30e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 42.23  E-value: 1.30e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509  460 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPgaapGPPPSGPILRPQNPGANPQLRslllnpAPPQTGVPPPQAS 539
Cdd:PHA03247  2809 AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPG----PPPPSLPLGGSVAPGGDVRRR------PPSRSPAAKPAAP 2878

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1720424509  540 LHhlqPP----GAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMllSGGPRGPVPQPGLQPS 608
Cdd:PHA03247  2879 AR---PPvrrlARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQ--PPPPPPPRPQPPLAPT 2946
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 460-587 2.17e-03

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: 41.17  E-value: 2.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLlnPAPPQTGVPPPQAS 539
Cdd:pfam09770 219 AQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQPDPAQPSIQ--PQAQQFHQQPPPVP 296

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1720424509 540 LHHLQPPGAPTLLPPHQsMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 587
Cdd:pfam09770 297 VQPTQILQNPNRLSAAR-VGYPQNPQPGVQPAPAHQAHRQQGSFGRQA 343
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 460-609 3.26e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 40.74  E-value: 3.26e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 460 APQPQPQgAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQTGVPPPQAS 539
Cdd:PRK07764  610 EEAARPA-APAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPA 688

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720424509 540 LHHL---QPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRA---PLPGQMLLSGGPRGPVPQPGLQPSV 609
Cdd:PRK07764  689 APAApagAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADdpvPLPPEPDDPPDPAGAPAQPPPPPAP 764
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 508-608 4.36e-03

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: 40.18  E-value: 4.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 508 LRPQNPGANPQLRSL-LLNPAPPQTGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQ-----LGPQLLHPPPAQSWPT--- 578
Cdd:TIGR01628 371 LQDQFMQLQPRMRQLpMGSPMGGAMGQPPYYGQGPQQQFNGQPLGWPRMSMMPTPMgpggpLRPNGLAPMNAVRAPSrna 450

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1720424509 579 -QLPQRAPLPGQMLLSGGPRGPVPQPGLQPS 608
Cdd:TIGR01628 451 qNAAQKPPMQPVMYPPNYQSLPLSQDLPQPQ 481
PHA03247 PHA03247
large tegument protein UL36; Provisional
 460-607 7.82e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.54  E-value: 7.82e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509  460 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQTGVPPPQAS 539
Cdd:PHA03247  2755 ARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSA 2834

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509  540 LhHLQPPGAPTLLPPHQSMG----------------QPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQP 603
Cdd:PHA03247  2835 Q-PTAPPPPPGPPPPSLPLGgsvapggdvrrrppsrSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQA 2913


                   ....
gi 1720424509  604 GLQP 607
Cdd:PHA03247  2914 PPPP 2917
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 517-607 9.11e-03

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


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 39.37  E-value: 9.11e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720424509 517 PQLRSLLLNPAPPQTGVPPPQASLHHLQPPGAPTLLP-PHQSMGQPQLGPQLLHPPPA--QSWPTQLPQRAPLPGQMLLS 593
Cdd:pfam03154 172 PVLQAQSGAASPPSPPPPGTTQAATAGPTPSAPSVPPqGSPATSQPPNQTQSTAAPHTliQQTPTLHPQRLPSPHPPLQP 251

                          90
                  ....*....|....
gi 1720424509 594 GGPRGPVPQPGLQP 607
Cdd:pfam03154 252 MTQPPPPSQVSPQP 265
 
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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