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Conserved domains on  [gi|1907184854|ref|XP_036009427|]
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mediator of RNA polymerase II transcription subunit 25 isoform X7 [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 ...
 293-442 1.21e-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: 247.64  E-value: 1.21e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 293 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 368
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 369 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 442
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 4.25e-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: 200.99  E-value: 4.25e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1907184854  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_SD1 super family cl25802
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-280 8.86e-31

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: 118.35  E-value: 8.86e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 280
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 554-610 1.17e-19

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: 83.93  E-value: 1.17e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 554 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLP 57
DUF4371 super family cl46273
Domain of unknown function (DUF4371);
625-683 1.15e-04

Domain of unknown function (DUF4371);


The actual alignment was detected with superfamily member pfam18658:

Pssm-ID: 480613  Cd Length: 64  Bit Score: 40.72  E-value: 1.15e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907184854 625 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHsKSYDQYTAQSRDTLLQE 683
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKH-PDTLSLSPEEKEAILEA 61
Atrophin-1 super family cl38111
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 458-610 1.25e-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.


The actual alignment was detected with superfamily member pfam03154:

Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 45.53  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 458 QQAPPVL---GPILEEQARPPQNLLQLRAPQPQPqgavgaSAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQ 534
Cdd:pfam03154 168 QTQPPVLqaqSGAASPPSPPPPGTTQAATAGPTP------SAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQR 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 535 NPGANPQLRSLLLNPAPPQTGVPP-PQASLHHLQPPGA----------PTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQL 603
Cdd:pfam03154 242 LPSPHPPLQPMTQPPPPSQVSPQPlPQPSLHGQMPPMPhslqtgpshmQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQS 321


                  ....*..
gi 1907184854 604 PQRAPLP 610
Cdd:pfam03154 322 QQRIHTP 328
 
Name Accession Description Interval E-value
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 293-442 1.21e-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: 247.64  E-value: 1.21e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 293 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 368
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 369 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 442
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 1-123 4.25e-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: 200.99  E-value: 4.25e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1907184854  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-280 8.86e-31

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: 118.35  E-value: 8.86e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 280
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 554-610 1.17e-19

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: 83.93  E-value: 1.17e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 554 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLP 57
zf-C2H2_12 pfam18658
Spin-doc zinc-finger; This is a zinc finger domain C2H2 type which can be found in SPIN1 ...
 625-683 1.15e-04

Spin-doc zinc-finger; This is a zinc finger domain C2H2 type which can be found in SPIN1 docking protein (SPIN-DOC) and Epm2a-interacting protein 1 (Epm2aip1). SPIN-DOC is a Spindlin1 (SPIN1) regulator that directly binds and strongly disrupts its histone methylation reading ability, causing it to disassociate from chromatin. Epm2aip1 is a glycogen synthase (GS)-associated protein. In the absence of Epm2aip1, the sensitivity of the liver to insulin, in which GS is a principal actor, is impaired.


Pssm-ID: 465831  Cd Length: 64  Bit Score: 40.72  E-value: 1.15e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907184854 625 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHsKSYDQYTAQSRDTLLQE 683
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKH-PDTLSLSPEEKEAILEA 61
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 458-610 1.25e-04

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


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 45.53  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 458 QQAPPVL---GPILEEQARPPQNLLQLRAPQPQPqgavgaSAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQ 534
Cdd:pfam03154 168 QTQPPVLqaqSGAASPPSPPPPGTTQAATAGPTP------SAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQR 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 535 NPGANPQLRSLLLNPAPPQTGVPP-PQASLHHLQPPGA----------PTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQL 603
Cdd:pfam03154 242 LPSPHPPLQPMTQPPPPSQVSPQPlPQPSLHGQMPPMPhslqtgpshmQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQS 321


                  ....*..
gi 1907184854 604 PQRAPLP 610
Cdd:pfam03154 322 QQRIHTP 328
PHA03247 PHA03247
large tegument protein UL36; Provisional
 457-618 9.03e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.00  E-value: 9.03e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  457 AQQAPPVLGPILEEQARPPqnllqLRAPQPQPQGAVGASAATGQP-QPQGATQAPtgapqgppGAAPGPPPSGPILRPQN 535
Cdd:PHA03247  2822 ASPAGPLPPPTSAQPTAPP-----PPPGPPPPSLPLGGSVAPGGDvRRRPPSRSP--------AAKPAAPARPPVRRLAR 2888

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  536 PGANPQLRSLLLNPAPPQtgvPPPQASlhhLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPVAKRK 615
Cdd:PHA03247  2889 PAVSRSTESFALPPDQPE---RPPQPQ---APPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQP 2962


                   ...
gi 1907184854  616 REG 618
Cdd:PHA03247  2963 WLG 2965
 
Name Accession Description Interval E-value
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 293-442 1.21e-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: 247.64  E-value: 1.21e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 293 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 368
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 369 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 442
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 1-123 4.25e-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: 200.99  E-value: 4.25e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854   1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1907184854  80 VSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 123
Cdd:pfam11265 173 ISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 125-280 8.86e-31

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: 118.35  E-value: 8.86e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 125 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 205 PLQQAAPGVGPPFSQAPAPPLAP-VPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 280
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 554-610 1.17e-19

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: 83.93  E-value: 1.17e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907184854 554 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLP 610
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLP 57
zf-C2H2_12 pfam18658
Spin-doc zinc-finger; This is a zinc finger domain C2H2 type which can be found in SPIN1 ...
 625-683 1.15e-04

Spin-doc zinc-finger; This is a zinc finger domain C2H2 type which can be found in SPIN1 docking protein (SPIN-DOC) and Epm2a-interacting protein 1 (Epm2aip1). SPIN-DOC is a Spindlin1 (SPIN1) regulator that directly binds and strongly disrupts its histone methylation reading ability, causing it to disassociate from chromatin. Epm2aip1 is a glycogen synthase (GS)-associated protein. In the absence of Epm2aip1, the sensitivity of the liver to insulin, in which GS is a principal actor, is impaired.


Pssm-ID: 465831  Cd Length: 64  Bit Score: 40.72  E-value: 1.15e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907184854 625 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHsKSYDQYTAQSRDTLLQE 683
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKH-PDTLSLSPEEKEAILEA 61
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 458-610 1.25e-04

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


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 45.53  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 458 QQAPPVL---GPILEEQARPPQNLLQLRAPQPQPqgavgaSAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQ 534
Cdd:pfam03154 168 QTQPPVLqaqSGAASPPSPPPPGTTQAATAGPTP------SAPSVPPQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQR 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 535 NPGANPQLRSLLLNPAPPQTGVPP-PQASLHHLQPPGA----------PTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQL 603
Cdd:pfam03154 242 LPSPHPPLQPMTQPPPPSQVSPQPlPQPSLHGQMPPMPhslqtgpshmQHPVPPQPFPLTPQSSQSQVPPGPSPAAPGQS 321


                  ....*..
gi 1907184854 604 PQRAPLP 610
Cdd:pfam03154 322 QQRIHTP 328
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 483-614 3.19e-04

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: 44.26  E-value: 3.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 483 APQPQPQGAVGASAATG---------------QPQPQGATQAPTGapqgppgaapgpppsgpilrPQNPGANPQLRSLLL 547
Cdd:pfam09770 174 APAPQPAAQPASLPAPSrkmmsleeveaamraQAKKPAQQPAPAP--------------------AQPPAAPPAQQAQQQ 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 548 NPAPPQTGVPPPQASLHHLQPPGAPTLLPPH-------------QSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPVAKR 614
Cdd:pfam09770 234 QQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTilqrpqspqpdpaQPSIQPQAQQFHQQPPPVPVQPTQILQNPNRLSAAR 313
PHA03247 PHA03247
large tegument protein UL36; Provisional
 457-618 9.03e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.00  E-value: 9.03e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  457 AQQAPPVLGPILEEQARPPqnllqLRAPQPQPQGAVGASAATGQP-QPQGATQAPtgapqgppGAAPGPPPSGPILRPQN 535
Cdd:PHA03247  2822 ASPAGPLPPPTSAQPTAPP-----PPPGPPPPSLPLGGSVAPGGDvRRRPPSRSP--------AAKPAAPARPPVRRLAR 2888

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  536 PGANPQLRSLLLNPAPPQtgvPPPQASlhhLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPVAKRK 615
Cdd:PHA03247  2889 PAVSRSTESFALPPDQPE---RPPQPQ---APPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQP 2962


                   ...
gi 1907184854  616 REG 618
Cdd:PHA03247  2963 WLG 2965
PHA03247 PHA03247
large tegument protein UL36; Provisional
 460-612 4.12e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.69  E-value: 4.12e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  460 APPVLGPiLEEQARPPQnllQLRAPQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPqnpgAN 539
Cdd:PHA03247  2688 ARPTVGS-LTSLADPPP---PPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARP----AR 2759

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  540 PQLRSLLLNPAPPQTGVPPPQASlhhLQPPGAPTLLPPHQSMGQPQ---------LGPQLLHPPPAQSWPTQLPQRAPLP 610
Cdd:PHA03247  2760 PPTTAGPPAPAPPAAPAAGPPRR---LTRPAVASLSESRESLPSPWdpadppaavLAPAAALPPAASPAGPLPPPTSAQP 2836


                   ..
gi 1907184854  611 VA 612
Cdd:PHA03247  2837 TA 2838
PHA03378 PHA03378
EBNA-3B; Provisional
 472-608 5.23e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 40.05  E-value: 5.23e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 472 ARPPQnllqlRAPQPQPQGAvgasAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPqnPGANPqlrSLLLNPAP 551
Cdd:PHA03378  694 MQPPP-----RAPTPMRPPA----APPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARP--PAAAP---GRARPPAA 759

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907184854 552 PQTGVPPPQASlhhlqpPGAPTLLPPHQS----MGQPQLGPQLLHPPPAQSWPTQLPQRAP 608
Cdd:PHA03378  760 APGRARPPAAA------PGAPTPQPPPQAppapQQRPRGAPTPQPPPQAGPTSMQLMPRAA 814
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 457-598 5.50e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 39.97  E-value: 5.50e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854 457 AQQAPPVLGPILEEQARPPQNLLQLRAPQPQpqgAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNP 536
Cdd:PRK07764  586 AVVGPAPGAAGGEGPPAPASSGPPEEAARPA---APAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDA 662

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907184854 537 GANPQLRSLLLNPAPPQTGVPPPQASLHHL---QPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQS 598
Cdd:PRK07764  663 SDGGDGWPAKAGGAAPAAPPPAPAPAAPAApagAAPAQPAPAPAATPPAGQADDPAAQPPQAAQG 727
PHA03247 PHA03247
large tegument protein UL36; Provisional
 483-621 9.36e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.54  E-value: 9.36e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907184854  483 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPgaapGPPPSGPILRPQNPGANPQLRslllnpAPPQTGVPPPQAS 562
Cdd:PHA03247  2809 AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPG----PPPPSLPLGGSVAPGGDVRRR------PPSRSPAAKPAAP 2878

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907184854  563 LHhlqPP----GAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPVAKRKREGEGR 621
Cdd:PHA03247  2879 AR---PPvrrlARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPR 2938
 
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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