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Conserved domains on  [gi|564327983|ref|XP_006229075|]
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mediator of RNA polymerase II transcription subunit 25 isoform X9 [Rattus norvegicus]

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 1.20e-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: 1.20e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  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 4.79e-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: 4.79e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983    1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 564327983   80 VSPRKLPALRLLFEKAAPPallEPLQPPADVSQDPRHMVLVRGL 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 ...
 125-281 5.10e-43

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: 152.63  E-value: 5.10e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  125 LPVGGSSAPGPLQPKQAVPLPPAPTSAATLSAAPQQTLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564327983  205 PLQQAASGVGPPFSQAPAPPLAP-GPPGAPKPPPASQPSLVSTVAPGPGLAAPAQPGAPSMqAGTVTPGGVSGPSPAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSM-AGTVAPGGVSGPSPAQ 157
Med25_NR-box super family cl24239
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 555-611 2.71e-16

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.


The actual alignment was detected with superfamily member pfam11244:

Pssm-ID: 463246 [Multi-domain]  Cd Length: 89  Bit Score: 74.30  E-value: 2.71e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  555 TGVPPPQASLHHLQPPGAPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLP 611
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLP 57
DUF4371 super family cl46273
Domain of unknown function (DUF4371);
626-684 1.57e-04

Domain of unknown function (DUF4371);


The actual alignment was detected with superfamily member pfam18658:

Pssm-ID: 480613  Cd Length: 64  Bit Score: 40.33  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 564327983  626 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHSrSYGQYTAQSRDTLLQE 684
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKHP-DTLSLSPEEKEAILEA 61
PAT1 super family cl37801
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 484-615 6.96e-04

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: 43.10  E-value: 6.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  484 APQPQPQGAVGASAATGQP-------------QPQGTTQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNP 550
Cdd:pfam09770 174 APAPQPAAQPASLPAPSRKmmsleeveaamraQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQP 253

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564327983  551 APPQTGVPPPQAsLHHLQppgaPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLPVAKR 615
Cdd:pfam09770 254 QQHPGQGHPVTI-LQRPQ----SPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNRLSAAR 313
 
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 1.20e-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: 1.20e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  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 4.79e-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: 4.79e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983    1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 564327983   80 VSPRKLPALRLLFEKAAPPallEPLQPPADVSQDPRHMVLVRGL 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 ...
 125-281 5.10e-43

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: 152.63  E-value: 5.10e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  125 LPVGGSSAPGPLQPKQAVPLPPAPTSAATLSAAPQQTLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564327983  205 PLQQAASGVGPPFSQAPAPPLAP-GPPGAPKPPPASQPSLVSTVAPGPGLAAPAQPGAPSMqAGTVTPGGVSGPSPAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSM-AGTVAPGGVSGPSPAQ 157
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 555-611 2.71e-16

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: 74.30  E-value: 2.71e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  555 TGVPPPQASLHHLQPPGAPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLP 611
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 ...
 626-684 1.57e-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: 40.33  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 564327983  626 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHSrSYGQYTAQSRDTLLQE 684
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKHP-DTLSLSPEEKEAILEA 61
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 484-615 6.96e-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: 43.10  E-value: 6.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  484 APQPQPQGAVGASAATGQP-------------QPQGTTQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNP 550
Cdd:pfam09770 174 APAPQPAAQPASLPAPSRKmmsleeveaamraQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQP 253

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564327983  551 APPQTGVPPPQAsLHHLQppgaPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLPVAKR 615
Cdd:pfam09770 254 QQHPGQGHPVTI-LQRPQ----SPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNRLSAAR 313
PHA03247 PHA03247
large tegument protein UL36; Provisional
 96-286 6.63e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.92  E-value: 6.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983   96 APPALLEPLQPPADvSQDPRhmvlvrglvlpvgGSSAPGPLQPKQAVPLPPAPTSAATLSAAPQqtlPPVPPQYQVPGNL 175
Cdd:PHA03247 2591 APPQSARPRAPVDD-RGDPR-------------GPAPPSPLPPDTHAPDPPPPSPSPAANEPDP---HPPPTVPPPERPR 2653

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  176 SAAQVAAQNAVEAAKNQKAGLGPRFSPINPLQQAA-SGVGPPFSQAPAPPLAPGPPGAPKPPPASQP-SLVSTVAPGPGL 253
Cdd:PHA03247 2654 DDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAArPTVGSLTSLADPPPPPPTPEPAPHALVSATPlPPGPAAARQASP 2733

                         170       180       190
                  ....*....|....*....|....*....|....
gi 564327983  254 AAPAQPGAPSMQAGTVTPGGVSGP-SPAQLGGPA 286
Cdd:PHA03247 2734 ALPAAPAPPAVPAGPATPGGPARPaRPPTTAGPP 2767
 
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 1.20e-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: 1.20e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  294 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 369
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  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 4.79e-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: 4.79e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983    1 MGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLVQKIGERGIHFSI 79
Cdd:pfam11265  93 SGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLAALMAERNIHLSI 172

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 564327983   80 VSPRKLPALRLLFEKAAPPallEPLQPPADVSQDPRHMVLVRGL 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 ...
 125-281 5.10e-43

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: 152.63  E-value: 5.10e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  125 LPVGGSSAPGPLQPKQAVPLPPAPTSAATLSAAPQQTLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIN 204
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564327983  205 PLQQAASGVGPPFSQAPAPPLAP-GPPGAPKPPPASQPSLVSTVAPGPGLAAPAQPGAPSMqAGTVTPGGVSGPSPAQ 281
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQLPPgPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSM-AGTVAPGGVSGPSPAQ 157
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 555-611 2.71e-16

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: 74.30  E-value: 2.71e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 564327983  555 TGVPPPQASLHHLQPPGAPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLP 611
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 ...
 626-684 1.57e-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: 40.33  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 564327983  626 EKWERDYFFV--EVKSMPTCLICKKNVSVLKEYNLKRHYESQHSrSYGQYTAQSRDTLLQE 684
Cdd:pfam18658   2 ERWRLEYLMDydPGRNGLVCMVCGESLASLKLSTIKRHILQKHP-DTLSLSPEEKEAILEA 61
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 484-615 6.96e-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: 43.10  E-value: 6.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  484 APQPQPQGAVGASAATGQP-------------QPQGTTQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNP 550
Cdd:pfam09770 174 APAPQPAAQPASLPAPSRKmmsleeveaamraQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQP 253

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564327983  551 APPQTGVPPPQAsLHHLQppgaPALLPPHQSLGQPQLGPQLLHPPPTQSWPTQLPQRAPLPVAKR 615
Cdd:pfam09770 254 QQHPGQGHPVTI-LQRPQ----SPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNRLSAAR 313
PHA03247 PHA03247
large tegument protein UL36; Provisional
 96-286 6.63e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.92  E-value: 6.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983   96 APPALLEPLQPPADvSQDPRhmvlvrglvlpvgGSSAPGPLQPKQAVPLPPAPTSAATLSAAPQqtlPPVPPQYQVPGNL 175
Cdd:PHA03247 2591 APPQSARPRAPVDD-RGDPR-------------GPAPPSPLPPDTHAPDPPPPSPSPAANEPDP---HPPPTVPPPERPR 2653

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564327983  176 SAAQVAAQNAVEAAKNQKAGLGPRFSPINPLQQAA-SGVGPPFSQAPAPPLAPGPPGAPKPPPASQP-SLVSTVAPGPGL 253
Cdd:PHA03247 2654 DDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAArPTVGSLTSLADPPPPPPTPEPAPHALVSATPlPPGPAAARQASP 2733

                         170       180       190
                  ....*....|....*....|....*....|....
gi 564327983  254 AAPAQPGAPSMQAGTVTPGGVSGP-SPAQLGGPA 286
Cdd:PHA03247 2734 ALPAAPAPPAVPAGPATPGGPARPaRPPTTAGPP 2767
 
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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