<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 MDP32612

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSDASTYRLEDVLSSFYRVEKIKKINYHQYISKAQNDQWSIQMEFMLRKQDPKTLVALLSRDLWCFSINDDPVPTPPAIEHKPVSPDKIGTFTADYSKPNLPPHYALFLKALRRKIYINLALGSHNKLIQFGNACISLSGVPNYLVQLEPHLFVNGDLTVSLCAKNMGLVPMKEENLEESFLSKHALYLAPSGIRMHLAPASKQGYLITPPKHTELLLTTLSVSHGINLQNKKNLKWVAVVPDLGHLNGHTPTIASYLTPLLEAKKLVWPLHLIFAQPVADIENSTSGDPSEFHCLQDALDAIDDFIQLKQTAAYRTPGSSGVLSSNIAGTNPLSSDGAYTEQFQHYKNNSISSQPASYHSVQETNKISPKDFSPNFTGIDKLMLSPSDQFAPAFLNTPNNNINENELFNDRKQTTVSNDLENSPLKTELEANGRSLEKVNNSVSKTGSVDTLHNKEGTLEQREQNENLPSDKSDSMVDKELFGEDEDEDLFGDSNKSNSTNESNKSISDEITEDMFEMSDEEENNNNKSINKNNKEMHTDLGKDIPFFPSSEKPNIRTMSGTTKRLNGKRKYLDIPIDEMTLPTSPLYMDPGAPLPVETPRDRRKSVFAPLNFNPIIENNVDNKYKSGGKFSFSPLQKEEALNFDISMADLSSSEEEEDEEENGSSDEDLKSLNVRDDMKPSDNISTNTNIHEPQYINYSSIPSLQDSIIKQENFNSVNDANITSNKEGFNSIWKIPQNDIPQTESPLKTVDSSIQPIESNIKMTLEDNNVTSNPSEFTPNMVNSEISNLPKDKSGIPEFTPADPNLSFESSSSLPFLLRHMPLASIPDIFITPTPVVTISEKEQDILDLIAEQVVTDYNILGNLGIPKIAYRGVKDCQEGLITTTMLQLFSTFDRLNGNDTISKFYNMKQPYVFVKKHHELIKVKHDSQPFIKFLNFRPPNGIKNFKSLLLSSSFKEDCLSFAPTLSQTYINQELGFCELLKLTNEDPPGLMYLKAFDKNKLLLLAAQIVSYCSNNKNSIKNVPPILIILPLDNATLTELVDKANIFQVIKNEVCAKMPNIELYLKVIPMDFIRNVLVTVDQYVNVAISIYNMLPPKSVKFTHIAHTLPEKVNFRTMQQQQMQQQQQQQQQQQNNSTGSSSIIYYDSYIHLAYSRSVDKEWVFAALSDSYGQGSMTKTWYVGNSRGKFDDACNQIWNIALNLASKKFGKICLILTRLNGILPDDELMNWRRLSGRNIHLAVVCVDDNSKISFIDEDKLYPSFKPIYKDTRFGGRMDMTRLYDYEIRDIDQDIHGIVFQHPFPLAHSQHRCAIRSGALIKFKKCDGDTVWDKFAVNLLNCPHSDSTQLLETILEEFRNLAALNVWYGLSDGEDGHIPWHILAVKKMMNTLVHTRVKIANTSAATVHTATSSSIILSDK
Length1420
PositionKinase
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.08
Grand average of hydropathy-0.458
Instability index47.03
Isoelectric point5.48
Molecular weight159999.05
Publications
PubMed=7774808
PubMed=8725217
PubMed=9169867
PubMed=24374639
PubMed=12200444
PubMed=15225552
PubMed=15477388
PubMed=16076843
PubMed=16109375
PubMed=15601835
PubMed=16630888
PubMed=17330950
PubMed=18407956
PubMed=19779198

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. The SRB8-11 complex phosphorylates the C-terminal domain (CTD) of the largest subunit of RNA polymerase II RPB1 at serines 2 and 5. 
ECO:0000269	PubMed:12200444
ECO:0000269	PubMed:15225552
ECO:0000269	PubMed:15601835
ECO:0000269	PubMed:16076843
ECO:0000269	PubMed:16109375
ECO:0000269	PubMed:16630888
GO - Cellular Component
mediator complex	GO:0016592	IDA:SGD
GO - Biological Function
transcription coactivator activity	GO:0003713	IDA:SGD
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IMSGD
positive regulation of transcription by RNA polymerase II	GO:0045944	IDA:SGD
positive regulation of transcription from RNA polymerase II promoter by galactose	GO:0000435	IMSGD
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions
[P38931<-->P07273: DST1]	NbExp=2	EBI-18059,EBI-19168

Repeat regions

Repeats

>MDP32612
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     647.18|     153|     153|     383|     535|       1
---------------------------------------------------------------------------
  283-  377 (92.64/46.50)	............................................................................IENSTS..GDPSEFHCLQDALDaiddfiQLKQT................AAYRTPGSSGVLSSNIAGTN...PLSSDGAYTEQfQHYKNNSISSQPAS..YHSVQETNKISPKDFSPN
  383-  535 (251.00/140.21)	KLMLSPSDQFAPAFLNTPNNNI.....NEN.ELFNDRKQTTVSND...L..ENSPLKT......ELEANGR.SLEKVNNSVSKTGSVDTLHNKEGTLE......QREQN................ENLPSDKSDSMVDKELFGEDEDEDLFGDSNKSNS.TNESNKSISDEITEDMFEMSDEEENNNNKSINKN
  537-  692 (183.87/100.48)	KEMHTDLGKDIPFFPSSEKPNIrtmsgTTK.RLNGKRKYLDIPIDemtL..PTSPLYM......D...PGA.PL.PVETPRDRRKSVFAPLNFNPIIE......NNVDNkyksggkfsfsplqkeEALNFDI..SMADLSSSEEEEDEEENG......S.SDEDLKSLN..VRDDM.......KPSDNISTNTN
  706-  816 (119.67/62.50)	SLQDSIIKQ..ENFNSVNDANI.....TSNkEGFNSIWKIP.QND...IpqTESPLKTvdssiqPIESNIKmTLEDNNVTSNPSEFTPNMVNSEIS..............................NLPKDKSG..IPE..F.TPADPNLSFESSSS.....................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.43|      20|     155|     850|     872|       3
---------------------------------------------------------------------------
  850-  872 (26.26/25.96)	LDLIAEQVVTdY.....NILGNlgIPKI
 1005- 1029 (29.17/16.20)	LLLLAAQIVS.YcsnnkNSIKN..VPPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     151.66|      47|     853|      84|     134|       4
---------------------------------------------------------------------------
   84-  134 (70.00/53.94)	PvsPDKIGTFTADYSKPNLPPHYALFLKALrRKIYINLALGsHNKLIQFGN
  942-  988 (81.65/48.09)	P..PNGIKNFKSLLLSSSFKEDCLSFAPTL.SQTYINQELG.FCELLKLTN
---------------------------------------------------------------------------


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 MDP32612 with Med13 domain of Kingdom Fungi



     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FDISMADLSSSEEEEDEEENGSSDEDLKSLNVRDDMKPSDNISTNTNIHEPQYIN
2) IPQTESPLKTVDSSIQPIESNIKMTLEDNNVTSNPSEFTPNMVNSEISNLPKDKSGIPEFTPA
3) NGKRKYLDIPIDEMTLPTSPLYMDPGAPLPVETPRDRRKSVFAPLN
4) SDQFAPAFLNTPNNNINENELFNDRKQTTVSNDLENSPLKTELEANGRSLEKVNNSVSKTGSVDTLHNKEGTLEQREQNENLPSDKSDSMVDKELFGEDEDEDLFGDSNKSNSTNESNKSISDEITEDMFEMSDEEENNNNKSINKNNKEMHTDLGKDIPFFPSSEKPNIRTMSGTTKR
646
743
569
389
700
805
614
567










Molecular Recognition Features






MoRF SequenceStartStop




1) KRKYLDIPID
571
580