<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 MDP29849

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSDASTYRLEDVLSSFYRLEKIKKINYHQYISKTQNDQWSIQMEFMLRKQDPKNLVALLSRDLWCFSINDDPIPPPPTIEHRPVNPDKVGSFTADYSKPNLPPHYALFLKALRRKIYVNLALGSHNKLIQFGNACISLSGAPSYLIQLEPHLFVNGDLTVSLCTKNMGLVPMKEDNLEESFLRKHALYLAPSGIRMHLAPASKQGYLIPPPKHTGLLLTTLSVSHGINLQNKKNLKWVAVIPDLGHLNGHTPTIASYLNPLIEAKKLIWPLHLIFAQPVADMENSTSADPSEFHSLQDALDAIDDFIQLKQTAAYRTPGSSGVLSSNIAGTNPLSSEGAYTEQFQHYKNNSIGSQPASYPSVQETNKISPKDFSPNFTGIDKLMLSPNDQFAPAFLNTPNNNINDNELFNDRKQTIVSNDLENSPLKAELEVSGKSLEKINNPISKTERVDGITNKGRLLEQQEQNEDLMSDKSDAMVDKELFGEDEDEDLFGDSNKSNSTNGSNKSISDEITEDMFEMSDEEENNNGKCANNNNRDTHTDLGKDMSFFPPSEEQSIRTMSGTAKKLNGKRKYLDIPIDEMTLPTSPLYMDPGAPLPVETPRDRRKSVFAPLNFNPIIENNVDNKYKSGGKFSFSPLQKEEALNFDVSMADLSSSEEEEEEEDDDGSSDGELKSLNVRDDMKLSDNIGTVTNFHEPQYINYSSMPNLPDSIMKQENFSSANEGNITGNKEGFNSIWKIPQNDIPQTESPLKTVDPSIQTTENNLKSTLEDNSATTNSSEFSSNLVNSETPNLPNDKSGIPEFTPADSNLPMESSSSLPFLLRHMPLASIPDIFITPNPVVTISEKEQDILDLIAEQVVTDYNILGNLGIPEITYKGVRNCQGGLVRTTMLQLFSSFDRLNGNETISKFYNMKQPYVFVKKHHELIKVKHDSQAFTKFLNFRPPNGIKNFKFLLLSSSFKEDSLSFAPTLSQTYINQELGFCELLKLTNEDPPGLMYLKSFDMNKLLLLSAQIVSYCSNSKNSIKSVPPILIILPLDNATLSELVDKANIFQVIRNEVCAKMPDIELFLKVIPMDFIKNALVTVDQYVNVAISIYNMLPPKSIKFTHIAHTLPEKVNFRTVQQQQKQQQQQQQQQQQQQQNNSTGSSSIIFYDSYIHLAYSRSVDKEWVFAALSDSNGQGSMTKTWYVGNARGKFDDACNQIWNMALNLASKKYGKICLILTRLNGILPDDELMNWRRLSGRNIHLAVVCVDDNSKISFIDEDKLYPSFKPIYKDTKFGGHIDMTRLDDYEVRDIDQDIHGVVFQHPFPLAHSQHRCAIRSGALIKFKKCDGDTVWDKFAVNLLNCPHSDSTQLLETILEEFRNLAALNAWYGLSDGTDGHIPWHILAVKKMMNTLVHTRVKIANTTTAANNTAASSSVTILDE
Length1424
PositionKinase
OrganismSaccharomyces kudriavzevii (strain ATCC MYA-4449 / AS 2.2408 / CBS 8840 / NBRC 1802 / NCYC 2889) (Yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.08
Grand average of hydropathy-0.474
Instability index43.72
Isoelectric point5.32
Molecular weight159848.47
Publications
PubMed=12775844
PubMed=22384314

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:EnsemblFungi
GO - Biological Function
transcription coactivator activity	GO:0003713	IEA:EnsemblFungi
GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription from RNA polymerase II promoter by galactose	GO:0000435	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP29849
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.43|      10|      15|     369|     378|       1
---------------------------------------------------------------------------
  369-  378 (21.16/12.56)	ISPKD.FSPNF
  386-  396 (16.28/ 7.58)	LSPNDqFAPAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.78|      15|      15|     755|     769|       2
---------------------------------------------------------------------------
  755-  769 (25.10/12.68)	DPSIQTTENNLKSTL
  771-  785 (24.68/12.35)	DNSATTNSSEFSSNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.18|      12|      15|     792|     803|       3
---------------------------------------------------------------------------
  792-  803 (22.89/13.31)	NLPNDKSGIPEF
  809-  820 (22.29/12.72)	NLPMESSSSLPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.31|      13|      15|     422|     435|       4
---------------------------------------------------------------------------
  422-  435 (18.93/18.85)	LE..NSPL.KAElEVSG
  438-  453 (15.38/ 8.06)	LEkiNNPIsKTE.RVDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.07|      21|      22|     473|     493|       5
---------------------------------------------------------------------------
  473-  493 (36.58/22.08)	D..KSDAMVDKELFGEDE.DEDLF
  495-  518 (27.49/14.71)	DsnKSNSTNGSNKSISDEiTEDMF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.75|      11|      15|     832|     842|       7
---------------------------------------------------------------------------
  832-  842 (20.53/15.29)	DIF.ITPNPVVT
  849-  860 (13.22/ 6.72)	DILdLIAEQVVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.45|      32|     132|     183|     214|       8
---------------------------------------------------------------------------
  183-  214 (59.52/43.83)	LRKHALYLAP..SGI.RMHLA...PASKQGYLIPPPKH
  310-  347 (41.93/28.35)	LKQTAAYRTPgsSGVlSSNIAgtnPLSSEGAYTEQFQH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.51|      37|     157|     547|     589|      13
---------------------------------------------------------------------------
  547-  589 (54.92/52.47)	MSFFPPSEEQSIrtmSGTAKKLNGKRKyldIPIDEMTLPTSPL
  715-  751 (65.59/43.28)	QENFSSANEGNI...TGNKEGFNSIWK...IPQNDIPQTESPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     175.29|      55|    1054|     120|     182|      20
---------------------------------------------------------------------------
  120-  182 (82.34/80.45)	NLALGSHNKliQFGNACISLSGAPSYLIQLEphlFVNGDltvSLCTKNMGL.VPMKEDNLEESF
 1204- 1259 (92.94/65.29)	NMALNLASK..KYGKICLILTRLNGILPDDE...LMNWR...RLSGRNIHLaVVCVDDNSKISF
---------------------------------------------------------------------------




































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 MDP29849 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FDVSMADLSSSEEEEEEEDDDGSSDGELKSLNVRDDM
2) HEPQYINYSSMPNLPDSIMKQENFSSANEGNIT
3) NDQFAPAFLNTPNNNINDNELFNDRKQTIVSNDLENSPLKAELEVSGKSLEKINNPISKTERVDGITNKGRLLEQQEQNEDLMSDKSDAMVDKELFGEDEDEDLFGDSNKSNSTNGSNKSISDEITEDMFEMSDEEENNNGKCANNNNRDTHTDLGKDMSFFPPSEEQSIRTMSGTA
4) NKEGFNSIWKIPQNDIPQTESPLKTVDPSIQTTENNLKSTLEDNSATTNSSEFSSNLVNSETPNLPNDKSGIPEFTPADSN
5) YLDIPIDEMTLPTSPLYMDPGAPLPVETPRDRRKSVFAP
646
695
389
729
574
682
727
565
809
612










Molecular Recognition Features






MoRF SequenceStartStop




1) KRKYLDIPID
571
580