<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP28083

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDTVDVETNVLLVNNIASFEYRFYEPSADSEPKFSPNALEIETNLREQGHVVSFDATRRGLWYFRIRRSIGPGPHAPPELGATIAINGQSLVSSKNGVMEPSTWHKALVPEPNHQKPNPASSGQATHLHATGIQLDLEATSMVEQTDSQPADGYSPKVLYEAFVGSLLLTISSRFCARSEAVPLNFRTVLLPALKPLQSGTDRWIGEQAQSLGTLTCYMISTGSLILSFSVTACPGLASLQDILSTSPSPSPIGNNILAAPFGVMTNEEQISPSYSTGANPAHTPNAQALAQRSPSDVSTSLWKQACLSVLELRGVPSAALRDCSWVNLLVSKPKLQDARPENGRGALSTISIPWPGSLCFRKKSVELSATNRISDTIGVGHDETHDPLGDARGWLSSANDREERVSKRHTERSAAGAKETLVVDSRVAKVNAPSPVTMRRPSTTGGNAVYPTPPDAIQHLNGVTPSMDGNLSSPGHPLSVVADVDIDCEPPGGVGLMPQHEDEMTDAAEAKPLRSDNSLLSDAENMFEDMGGDMFGDNDITEDDFNFFDEQPDELGMDITLDSIKEATASTATMVQAEVPHVSTSTNIQPATEQVVFAKPELKHARSSQPEDGLQRGRDIQAKSVKRGSSPFDPDSVFKRLRAAASQQSQRAAYGVGSNRGHKIFGKVAFDLKMPMLNKKYEHGGFFDFVPNDKDVDKLEPGTLPKTDYLRRHGKTKAKTQNNSRRSSLVKSGNDSDLDHRLLKLDGDISDGDDSSSDSDTVSNLSVKEPISPVKSTVKQSLLGDDDAASHATTSREPELAEEPDEQLALELPRLSLLDGPDTSLFKYFTDPEPLSLDISLSDEDMIQVAQLVGEQAATGSLLIFNGQPDIGFVSAPDEDTRIEELTGARSALQALRNAASCVIEGVSPVSLKALLEIQDNSLPGPGNRIPPRQIPSRDPNSEPIKPSNLYQIPCPHLEVRRADVKMSLLPTAVTFWENLGLSPSSGSKDIHAVCVCPKWAGMVDNAQTFLGRMKSAYETLKLGTFENLPLSADMDDGVLLYGVDRISTAPDAAMMGHGSALLESMETLSGAMSTLELVDTNVVVYFMYSTSNPGTIVEACMAFQRFFESYRRTLSARRESAKNEIVLQLVSADAISSPTHIVVTRSSELNKLCMETYDRCTLFGGNMPAPAIRLEQPLPRIIDFKLSPAPSSSLARENSCIHIAYARSIDGRWVTAAWTDDRGNEQATAAYCLGRKGEPESRTMNDVAHEIWETTVDLISTWKVHYRIIMTKCGPTDDGEIDFWVDLARTEINASVTMIIMTVDTNPSLQLVPAPVKMPLQPLSIYTTPVSTPQANIVSPDASAAPATPARDPTAAAMTPGGESTGDADPDSVLADVMDQTWGAIVNHRLNNTVNTANIHPTLISGYLIKRTGPRAEDVPRLIEVNLVYTEATARTYEPLLREMLSYFRGLGTLARARGVVDGQTDVRPWHVAAAEKALRALYILM
Length1488
PositionKinase
OrganismCordyceps militaris (strain CM01) (Caterpillar fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Cordycipitaceae> Cordyceps.
Aromaticity0.06
Grand average of hydropathy-0.320
Instability index49.53
Isoelectric point5.03
Molecular weight161236.51
Publications
PubMed=22112802

Function

Annotated function Component of the SRB8-11 complex. The SRB8-11 complex is a regulatory module of the Mediator complex which is itself involved in regulation of basal and activated RNA polymerase II-dependent transcription. The SRB8-11 complex may be involved in the transcriptional repression of a subset of genes regulated by Mediator. It may inhibit the association of the Mediator complex with RNA polymerase II to form the holoenzyme complex. 
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28083
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     181.17|      61|      67|     694|     757|       1
---------------------------------------------------------------------------
  694-  757 (94.00/63.07)	DKD.VDKL...EPGTlPKTDYLRRH..GKTKAKTQNNSRRSSLVKSGNDSDLDHRLLKLdgDISDGDDSS
  759-  825 (87.17/48.97)	DSDtVSNLsvkEPIS.PVKSTVKQSllGDDDAASHATTSREPELAEEPDEQLALELPRL..SLLDGPDTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     154.95|      36|     146|     416|     470|       2
---------------------------------------------------------------------------
  434-  470 (63.86/56.30)	PSPVT.MRRPS....TTGGNAVYPTPPDAIQhLNGVTPSMDG
 1315- 1345 (47.16/14.89)	PAPVK.MPLQP....LS....IYTTPVSTPQ.ANIVSPDAS.
 1347- 1385 (43.94/15.39)	.APATpARDPTaaamTPGGESTGDADPDSV..LADVMDQTWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     221.31|      72|     477|      77|     155|       4
---------------------------------------------------------------------------
   77-  155 (118.82/81.57)	PPELGATIAINgqslvSSKNGVMEPSTWHKALVPE.PNHQKPNPAS......SGQATHLHAT....GIQ..LDLEATSMveQTDSQPADGYS
  553-  637 (102.49/57.03)	PDELGMDITLD.....SIKEATASTATMVQAEVPHvSTSTNIQPATeqvvfaKPELKHARSSqpedGLQrgRDIQAKSV..KRGSSPFDPDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     517.68|     164|     239|     876|    1054|       5
---------------------------------------------------------------------------
  876- 1054 (264.25/187.16)	SAPDEDTRIEELTGARSAlQALRNAASCVIEGVSPVSlKALLEIQD......NSLPGPGNRI..P.PRQIpsrDPNSEPIKPSNL.YQIPCPHLEVRRA.DVKmsllptavtfWENLGLSPSSGSKDIHAV.CV....CPKWAGMVDNAQTFLGRMKSAYETLKLGTFENLPLSADMDDGVLLYGVDRISTAPDA
 1117- 1296 (253.43/149.60)	SARRESAKNEIVLQLVSA.DAISSPTHIVVTRSSELN.KLCMETYDrctlfgGNMPAPAIRLeqPlPRII...DFKLSPAPSSSLaRENSCIHIAYARSiDGR..........WVTAAWTDDRGNEQATAAyCLgrkgEPESRTMNDVAHEIWETTVDLISTWKVHYRIIMTKCGPTDDGEIDFWVDLARTEINA
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP28083 with Med13 domain of Kingdom Fungi
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