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Conserved domains on  [gi|568948653|ref|XP_006541327|]
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mediator of RNA polymerase II transcription subunit 25 isoform X5 [Mus musculus]

Protein Classification

Med25_VWA and Med25 domain-containing protein( domain architecture ID 12109167)

protein containing domains Med25_VWA, Med25_SD1, Med25, and Med25_NR-box

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 71-285 6.61e-120

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: 359.30  E-value: 6.61e-120
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653   71 GGLVADVVFVIEGTANLGPYFEELRKHYLLPAIEYFNGGPPAETDFGGDYGGTQYSLVVFNTVDCAPESYVQCHAPTSSA 150
Cdd:pfam11265   1 SSVVADVVFVVEGTANLGAYFNELKTNYILPTLEYFNGGPIEERDYGSENGSTLYGLVVYHAADCLPEPSVQCYGPTSSP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  151 YEFVTWLDGIKFMGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLV 229
Cdd:pfam11265  81 HKFLQWLDKIDFSGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLA 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568948653  230 QKIGERGIHFSIVSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 285
Cdd:pfam11265 161 ALMAERNIHLSIISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 455-604 7.95e-80

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: 252.65  E-value: 7.95e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  455 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 530
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  531 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 604
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 692-780 1.06e-38

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: 138.25  E-value: 1.06e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  692 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 771
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 568948653  772 EDDILMDLI 780
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 ...
 287-442 1.03e-29

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: 115.26  E-value: 1.03e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  287 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 366
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  367 PLQQAAPGVGPPFSQAPAPP-LAPVPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 442
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQlPPGPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
 
Name Accession Description Interval E-value
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 71-285 6.61e-120

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: 359.30  E-value: 6.61e-120
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653   71 GGLVADVVFVIEGTANLGPYFEELRKHYLLPAIEYFNGGPPAETDFGGDYGGTQYSLVVFNTVDCAPESYVQCHAPTSSA 150
Cdd:pfam11265   1 SSVVADVVFVVEGTANLGAYFNELKTNYILPTLEYFNGGPIEERDYGSENGSTLYGLVVYHAADCLPEPSVQCYGPTSSP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  151 YEFVTWLDGIKFMGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLV 229
Cdd:pfam11265  81 HKFLQWLDKIDFSGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLA 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568948653  230 QKIGERGIHFSIVSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 285
Cdd:pfam11265 161 ALMAERNIHLSIISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 455-604 7.95e-80

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: 252.65  E-value: 7.95e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  455 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 530
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  531 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 604
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 692-780 1.06e-38

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: 138.25  E-value: 1.06e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  692 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 771
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 568948653  772 EDDILMDLI 780
Cdd:pfam11244  81 EDDILMDLI 89
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 287-442 1.03e-29

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: 115.26  E-value: 1.03e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  287 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 366
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  367 PLQQAAPGVGPPFSQAPAPP-LAPVPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 442
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQlPPGPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
PHA03378 PHA03378
EBNA-3B; Provisional
 687-772 1.79e-04

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 45.06  E-value: 1.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653 687 PAPPQTGVPPPQASLHHLQPP-GAPTLLPPHQS----MGQPQLGPQLLHPP---PAQSWPTQLPQRAPLPGQMLlSGGPr 758
Cdd:PHA03378 717 PAAATGRARPPAAAPGRARPPaAAPGRARPPAAapgrARPPAAAPGRARPPaaaPGAPTPQPPPQAPPAPQQRP-RGAP- 794

                         90
                 ....*....|....
gi 568948653 759 GPVPQPGLQPSVME 772
Cdd:PHA03378 795 TPQPPPQAGPTSMQ 808
 
Name Accession Description Interval E-value
Med25_VWA pfam11265
Mediator complex subunit 25 von Willebrand factor type A; The overall function of the ...
 71-285 6.61e-120

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: 359.30  E-value: 6.61e-120
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653   71 GGLVADVVFVIEGTANLGPYFEELRKHYLLPAIEYFNGGPPAETDFGGDYGGTQYSLVVFNTVDCAPESYVQCHAPTSSA 150
Cdd:pfam11265   1 SSVVADVVFVVEGTANLGAYFNELKTNYILPTLEYFNGGPIEERDYGSENGSTLYGLVVYHAADCLPEPSVQCYGPTSSP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  151 YEFVTWLDGIKFMGGGGESCSLIAEGLSTALQLFDDFKKMREQIG-QTHRVCLLICNSPPYLLPAVESTTYSGCTTESLV 229
Cdd:pfam11265  81 HKFLQWLDKIDFSGGGGESCALIAEGLATALQCFDDLQKIRENPGlACQRHCILICNSPPYQLPVMESPTYTGKTAEQLA 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 568948653  230 QKIGERGIHFSIVSPRKLPALRLLFEKAAPPallEPLQQPADVSQDPRHMVLVRGL 285
Cdd:pfam11265 161 ALMAERNIHLSIISPRKIPALFKLFEKAGPD---LPSSPSKNYAKDPRHLVLLRGF 213
Med25 pfam11232
Mediator complex subunit 25 PTOV activation and synapsin 2; Mediator is a large complex of up ...
 455-604 7.95e-80

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: 252.65  E-value: 7.95e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  455 SNKLLAWSGVLEWQEKPKpasvDANTKLTRSLPCQV--YVNHGE-NLKTEQWPQKLIMQLIPQQLLTTLG-PLFRNSRMV 530
Cdd:pfam11232   1 SQRELIWSGVLEWQEKMS----DQNPKITRTLPCQVsnSVKNGEpELKAEKWPQKLIMQLMPKTLLGNIGgALLRNSRVV 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  531 QFHFTNKDLESLKGLYRIMGNGFAGCVHF---PHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHK 604
Cdd:pfam11232  77 VFHFTPTDLEALKSLYRVMSNGFAGCVHFpgiPANPQCDIKVLMLLYSPKKNAFMGLIPNDQAAFVNRLRQVIKKQK 153
Med25_NR-box pfam11244
Mediator complex subunit 25 C-terminal NR box-containing; The overall function of the ...
 692-780 1.06e-38

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: 138.25  E-value: 1.06e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  692 TGVPPPQASLHHLQPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQPGLQPSVM 771
Cdd:pfam11244   1 TSVPQTQQPLHHMQQAAQGMLPHQHQAPGQQQLGQTLMHQAPAQSWGAQLPPRAPLPGQMLLSGGPRGPVPQPGLAPSVM 80


                  ....*....
gi 568948653  772 EDDILMDLI 780
Cdd:pfam11244  81 EDDILMDLI 89
Med25_SD1 pfam11235
Mediator complex subunit 25 synapsin 1; The overall function of the full-length Med25 is ...
 287-442 1.03e-29

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: 115.26  E-value: 1.03e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  287 LPVGGSSTSGSLQTKQAVPLPPAPASAATLSAAPPQALPPVPPQYQVPGNLSAAQVAAQNAVEAAKSQKAGLGPRFSPIN 366
Cdd:pfam11235   1 LPVGGGSAPGPLQSKQPVPLPPAAPSGATLSAAPQQPLPPVPPQYQVPGNLSAAQVAAQNAVEAAKNQKAGLGPRFSPIT 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568948653  367 PLQQAAPGVGPPFSQAPAPP-LAPVPPGAPKPPPASQPSLVSTVAPGPVLAAPAQPGAPSLAGTVTPGGVNGPSAAQ 442
Cdd:pfam11235  81 PLQQAAPGVGPPFSQAPAPQlPPGPPGAPKPVPPASQPSLVSTVAPGSGLAPTAQPGAPSMAGTVAPGGVSGPSPAQ 157
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 621-767 2.02e-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: 54.66  E-value: 2.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  621 APQPQPQGAVGASAATGQP-------------QPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNP 687
Cdd:pfam09770 174 APAPQPAAQPASLPAPSRKmmsleeveaamraQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQP 253

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  688 APPQTGVPPPQAslhhLQPPGAPTLlPPHQSMGQPQLGPQLLHPPPAQSWPTQL---PQRAPLPGQMLLSGGPRGPVPQP 764
Cdd:pfam09770 254 QQHPGQGHPVTI----LQRPQSPQP-DPAQPSIQPQAQQFHQQPPPVPVQPTQIlqnPNRLSAARVGYPQNPQPGVQPAP 328


                  ...
gi 568948653  765 GLQ 767
Cdd:pfam09770 329 AHQ 331
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 621-764 5.13e-05

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


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 47.07  E-value: 5.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  621 APQPQPQGAVGASAATGQP---------QPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQ 691
Cdd:pfam03154 181 ASPPSPPPPGTTQAATAGPtpsapsvppQGSPATSQPPNQTQSTAAPHTLIQQTPTLHPQRLPSPHPPLQPMTQPPPPSQ 260

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  692 TGVPP-PQASLH---------------HLQPPGAPTLLPPHQSMGQPQ--LGPQLLHPPPAQSWPTQLPQRAPLPGQMLL 753
Cdd:pfam03154 261 VSPQPlPQPSLHgqmppmphslqtgpsHMQHPVPPQPFPLTPQSSQSQvpPGPSPAAPGQSQQRIHTPPSQSQLQSQQPP 340

                         170
                  ....*....|.
gi 568948653  754 SGGPRGPVPQP 764
Cdd:pfam03154 341 REQPLPPAPLS 351
PHA03378 PHA03378
EBNA-3B; Provisional
 687-772 1.79e-04

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 45.06  E-value: 1.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653 687 PAPPQTGVPPPQASLHHLQPP-GAPTLLPPHQS----MGQPQLGPQLLHPP---PAQSWPTQLPQRAPLPGQMLlSGGPr 758
Cdd:PHA03378 717 PAAATGRARPPAAAPGRARPPaAAPGRARPPAAapgrARPPAAAPGRARPPaaaPGAPTPQPPPQAPPAPQQRP-RGAP- 794

                         90
                 ....*....|....
gi 568948653 759 GPVPQPGLQPSVME 772
Cdd:PHA03378 795 TPQPPPQAGPTSMQ 808
VWA pfam00092
von Willebrand factor type A domain;
76-194 2.20e-04

von Willebrand factor type A domain;


Pssm-ID: 459670 [Multi-domain]  Cd Length: 174  Bit Score: 42.65  E-value: 2.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653   76 DVVFVIEGTANLGPY-FEELRKhYLLPAIEYFNGGPPaetdfggdygGTQYSLVVFNtvdcapeSYVQCHAPTSSAY--- 151
Cdd:pfam00092   1 DIVFLLDGSGSIGGDnFEKVKE-FLKKLVESLDIGPD----------GTRVGLVQYS-------SDVRTEFPLNDYSske 62

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 568948653  152 EFVTWLDGIKFMGGGGescSLIAEGLSTALQ-LFDDFKKMREQI 194
Cdd:pfam00092  63 ELLSAVDNLRYLGGGT---TNTGKALKYALEnLFSSAAGARPGA 103
PHA03247 PHA03247
large tegument protein UL36; Provisional
 621-769 1.47e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 42.23  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  621 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPgaapGPPPSGPILRPQNPGANPQLRslllnpAPPQTGVPPPQAS 700
Cdd:PHA03247 2809 AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPG----PPPPSLPLGGSVAPGGDVRRR------PPSRSPAAKPAAP 2878

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568948653  701 LHhlqPP----GAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMllSGGPRGPVPQPGLQPS 769
Cdd:PHA03247 2879 AR---PPvrrlARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQ--PPPPPPPRPQPPLAPT 2946
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 621-769 1.81e-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: 41.95  E-value: 1.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  621 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGanpqlrslllnPAPPQTGVPPPQAS 700
Cdd:pfam09770 219 AQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQSPQ-----------PDPAQPSIQPQAQQ 287

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568948653  701 LHHLQPPgaptllPPHQSMgqpqlgpQLLHPPPAQSwptqlPQRAPLPGQMLLSGGPRGPVPQPGLQPS 769
Cdd:pfam09770 288 FHQQPPP------VPVQPT-------QILQNPNRLS-----AARVGYPQNPQPGVQPAPAHQAHRQQGS 338
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 678-768 3.49e-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: 40.91  E-value: 3.49e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  678 PQLRSLLLNPAPPQTGVPPPQASLHHLQPPGAPTLLP-PHQSMGQPQLGPQLLHPPPA--QSWPTQLPQRAPLPGQMLLS 754
Cdd:pfam03154 172 PVLQAQSGAASPPSPPPPGTTQAATAGPTPSAPSVPPqGSPATSQPPNQTQSTAAPHTliQQTPTLHPQRLPSPHPPLQP 251

                          90
                  ....*....|....
gi 568948653  755 GGPRGPVPQPGLQP 768
Cdd:pfam03154 252 MTQPPPPSQVSPQP 265
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 622-770 3.93e-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: 40.91  E-value: 3.93e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  622 PQPQPQGAVGASAATGQP--QPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLR---SLLLNPAPPQ--TGV 694
Cdd:pfam03154 311 PGPSPAAPGQSQQRIHTPpsQSQLQSQQPPREQPLPPAPLSMPHIKPPPTTPIPQLPNPQSHkhpPHLSGPSPFQmnSNL 390

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  695 PPPQA-----SLHHLQPPGAP----TLLPPHQSMGQPQLGPQLL-----HPPPAQSWPT-----QLPQRAPLPGQMLLSG 755
Cdd:pfam03154 391 PPPPAlkplsSLSTHHPPSAHppplQLMPQSQQLPPPPAQPPVLtqsqsLPPPAASHPPtsglhQVPSQSPFPQHPFVPG 470

                         170
                  ....*....|....*
gi 568948653  756 GPRGPVPQPGLQPSV 770
Cdd:pfam03154 471 GPPPITPPSGPPTST 485
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 621-770 4.41e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 40.74  E-value: 4.41e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653 621 APQPQPQgAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQTGVPPPQAS 700
Cdd:PRK07764 610 EEAARPA-APAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPA 688

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568948653 701 LHHL---QPPGAPTLLPPHQSMGQPQLGPQLLHPPPAQSWPTQLPQRA---PLPGQMLLSGGPRGPVPQPGLQPSV 770
Cdd:PRK07764 689 APAApagAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADdpvPLPPEPDDPPDPAGAPAQPPPPPAP 764
PHA03247 PHA03247
large tegument protein UL36; Provisional
 621-768 9.01e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.92  E-value: 9.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  621 APQPQPQGAVGASAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPQNPGANPQLRSLLLNPAPPQTGVPPPQAS 700
Cdd:PHA03247 2755 ARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSA 2834

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653  701 LhHLQPPGAPTLLPPHQSMG----------------QPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLLSGGPRGPVPQP 764
Cdd:PHA03247 2835 Q-PTAPPPPPGPPPPSLPLGgsvapggdvrrrppsrSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQA 2913


                  ....
gi 568948653  765 GLQP 768
Cdd:PHA03247 2914 PPPP 2917
PHA03378 PHA03378
EBNA-3B; Provisional
 622-765 9.04e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 39.67  E-value: 9.04e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568948653 622 PQPQPQGAVGA----SAATGQPQPQGATQAPTGAPQGPPGAAPGPPPSGPILRPqnpganpqlrslllnPAPPQTGVPPP 697
Cdd:PHA03378 703 PMRPPAAPPGRaqrpAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARP---------------PAAAPGRARPP 767

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568948653 698 QASlhhlqpPGAPTLLPPhqsmgqPQLGPQLLHPPPAQSWPTQLPQRAPLPGQMLlsggPRGPVPQPG 765
Cdd:PHA03378 768 AAA------PGAPTPQPP------PQAPPAPQQRPRGAPTPQPPPQAGPTSMQLM----PRAAPGQQG 819
 
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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