<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 MDP24642

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLRPSNISTNYYKIAHLHDISYRIYTAVDSANEQMLLELEVQIRHDHPSILINYYNRSLFVFQFSHVASSIDLQELYPQLKLSSSHTSSPKDLTTSRTVRPAADDPVPYAGLCFLKAVKKLVLFNLSRAGAVKLFGNYAVAADDEKTYSMIYLDPILLPSGDVLVSMSRRTKPRLLATSVLETSSSAYYAIYLIPSGIRCHLFGANLEACLTSVPPSNHKPLISLLERAIGVSISSDILWVKLVPNLQHLNNQTSPISQFVHSVDNKKYIMWPWNLCLVQYGHTEHSEEPLKNSPFDPVGMISEFLDFSINVHSQMAPSPHDSQLAPPFSVPSIMSTDASGEVVEVRDSVEDEVFPSPSVGLPKENERSEKSDDELDDLFGDNSEPENDDKQQIKDISVKDTTTENGDVEMHSPSPKTEHISSPLVAATSIQNSQISQNKSPNQSSQSQQSHQTFVDIPKDQMLTKEQMLASFRATPQSYDDPGAPPAIMPTPVVPQHYQSTPGDTIPSKSVFSPILFNPLIKNNIDTKYGKGGKFYVEKDSSVGVEDAKSKTRATSVSAPTNKDGVTGLGISRHRQSKDYEEVFADDESMDSEKSASSDESDEDEADDNAIMESVTSPLRLNVADMSADNVKSAPNNPSNGENFNGTHGPDGQSSSLPTSSVPISSSVAGAGLAFNTGLANVDSFYSPFMKNTKKDWPESVQSEEVSNPSDASEPASTNASEPASRNSEPESDHTEEKKQDSQPPSSSSTNCLPLILRGINTSTIPDMFLTNNIENNIKNELIMDVEADTETSDLGCGMELKAKSEGLNDLLETLVPSLIFDHGLTNIDSKLVQYFVNDEEEALVHSDRIPLHLSTAFSSLFPHSYNVSLFEFLTPIYGQDEKTSFLDELTVTGMLQFEGEKLNNLQWDAIYPDAGNQESSDIETYLQLVSQIEESPEREDSGIIALKEPMITVKKDDAIINLSSTSLSFWNFLNFSPVNGPKDFQTVLVCDSDPNNTGSQFLDSLAYCYHECSFGTMAKLNLNSSSSLDLQRINGTINIVYDETSENGGAVRVVERELMKLAELIKLDLMEKSNSFDFKSPFLLLFALSDTRFNAHLSVAKLLRNFRQVLRQNQLPIVEVFCHIIPSSVLFKGPPSSRSLRYLSSSKLCRIAMSLYNQCPTLKHNSATRPLNKTAFATLAKDPPEKLRLNLPGATKDSKDAYSDDIFLHLAYERSIDKSWIVGVWSDPRGLLTHTKAWYCSPSRRTTKVANSIEEVCDDLWALSMEFFKNLIEQASKNVSGRKFLVLTRVNNVIPDDELVHWKRLSVKHKEISLIVLSVNKSPKTVFSSSSNGEDETMEKTENVPTTMPPDIPSVDSDVFRLGYGNSNSTSPAAMMGSSPNNINFSSPRQILNASGNFLSPQDLISTVGSLGGHNGVNGGASPSKVAEVVDTERILEDPSQDICAVVPITTLPTVNSPTRLAMKSGYLLGSFGPQMLQYEVSLLSCSSYWSPDAIMKILLRHYKKMIVLGDILCIKGKFQPPQLSKSRFTDEQAASAIVPWHITAVTKALDYLVHVEVN
Length1561
PositionKinase
OrganismMeyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) (Yeast) (Candida guilliermondii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Meyerozyma.
Aromaticity0.07
Grand average of hydropathy-0.350
Instability index53.86
Isoelectric point5.00
Molecular weight172153.27
Publications
PubMed=19465905

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP24642
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.89|      13|      17|     477|     491|       1
---------------------------------------------------------------------------
  477-  491 (21.97/17.60)	PQSYDdpGAPPAIMP
  496-  508 (26.92/13.94)	PQHYQ..STPGDTIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     115.27|      36|     745|     625|     671|       4
---------------------------------------------------------------------------
  588-  623 (56.40/21.06)	DESMDSEKSASSDESDEDEADDNAIMESVTSPLRLN
  626-  661 (58.88/30.68)	DMSADNVKSAPNNPSNGENFNGTHGPDGQSSSLPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     257.11|      65|     691|     663|     765|       5
---------------------------------------------------------------------------
  232-  301 (97.56/35.14)	VS.........................................ISSDILW..VKLVPNlQHLNNQTSPISQFVHsvDNKKYimWPWNLCLVQY....GHTEHSEEPLKNSPFDPVGM
  663-  727 (107.43/40.49)	VP.........................................ISSSVAG..AGLAFN.TGLANVDSFYSPFMK..NTKKD..WPESVQSEEV....SNPSDASEPASTNASEPASR
  766-  870 (52.11/59.46)	IPdmfltnnienniknelimdveadtetsdlgcgmelkaksegLNDLLETlvPSLIFD.HGLTNIDSKLVQYFV..NDEEE....ALVHSDRIplhlSTAFSSLFPHSYNVS.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.91|      23|      24|     363|     385|      15
---------------------------------------------------------------------------
  363-  385 (37.28/21.34)	PKENERSEKSDDELDDLFGDNSE
  386-  408 (35.63/20.05)	PENDDKQQIKDISVKDTTTENGD
---------------------------------------------------------------------------




































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 MDP24642 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KDSSVGVEDAKSKTRATSVSAPTNKDGVTGLGISRHRQSKDYEEVFADDESMDSEKSASSDESDEDEADDNAIMESVTSPLRLNVADMSADNVKSAPNNPSNGENFNGTHGPDGQSSSLPTSSVPISSSVAGAGL
2) SGEVVEVRDSVEDEVFPSPSVGLPKENERSEKSDDELDDLFGDNSEPENDDKQQIKDISVKDTTTENGDVEMHSPSPKTEHISSPLVAATSIQNSQISQNKSPNQSSQSQQSHQTFVDIPKDQMLTKEQMLASFRATPQSYDDPGAPPAIMPTPVVPQHYQSTPGDTIPSK
3) SPFMKNTKKDWPESVQSEEVSNPSDASEPASTNASEPASRNSEPESDHTEEKKQDSQPPSSSSTNCL
540
340
688
674
510
754










Molecular Recognition Features






MoRF SequenceStartStop




1) KFYVEK
535
540