<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 MDP28904

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDTDVTVFRMEELSSSFYKIENITKINYRQYIPKHNEDQWSIQMELLLRKQDRKTLVALLSRELWVFSTNDNQLPELPPMTNELVVPEKEGEFTSDYSKPNLPPHYALFLKALRRAIYINLAFESNSQVVQFGNACISLKQSTSDSNYLLQLEPHLFSDGDLAVTVCTKNVGLIPLREENLNEAFFRSHALYLAPSGIRIDYRPTNGQYCLSPAPLNAELLLKTLKHSHGVNFLEQTNLKWITVVPHLAHLNGYTPSISSYIASTTDTKRIVWPLALCFAQPATKITDPLKDDALSFQTFRDALDIVDDFIQLRQSSAYRTPGSITNLGTNPMSSGGGYTEQFQQSYKGPFSGSGHPSINASPSIHSASNHINTDISPNGLGIDKTVLPTDTFSNELFSSPSMSRVSGRKKITVSNNSKISHGNELFNGRSIDDTNTVDISPLKSEIDSFIMMEPPIEPPIENISDDKDLFGEDDEDEDLNNTATGTNPATNLNSYNIDGDEDLFGERNETPASVPKEVTKGGSDEITEDMFGMSEDDEETGRHSSTPAMYYMNPNTDLTKSSVKKRKYLDIPIDEMTLSNSPLYQDPGAPLPIETPRDKRKSVFAPLTFNPIIENNVDNKYKNGGKFSFSPAIKEEALNFDVMQGELSSSEDEESESSFDADQYNNMNQELKSMEDSVHDTNFLNYQPIQGVQDSVPPELLSSNFVSVNDASTRDNTNSIWRIPQSEIVTNESPLKTAEPSLPSLEPNLSTKLLKSEISAFADDVVREKSGSVSPPSDTGLQEATKDSKYQISEKAMSQYSSNSLPFLLRHMPISSIPDVFLEQNVTLKISKTNQDIVNLLCEQVVFDSGILADLSIPRNLYESTTVDEKGVVATAMHNLFSYFEQMHGNQIISKFYSINHPFVFVKKNHDMIKIRADAQIFGKYLNSRPPSGIKNFKLLLLSTSNKNDCLSFISTLSQTYISQEFGFCELLKLTDEDMNGLIHLKDLNKPKLLLLAAQIVSYCSTNKNAGKDATIMILLPLDTVDHWELVSKAKSFQIVRDEVRAKIPDIELFFKVVPLKFIKDSLISIEDIYNFASSIYNILPSKSVKYTSIAHKLPEKIEFRTMQQTNGSTYVHYDAYIHLAYSRSIDKQWVFAALSDSEGKENLIRSWYVGTSKTLFDEACNQLWSLSLSLAGKKYGKICLILTRLNGILPDDELINWRRLSGRNVHLAVVCVDDNTKISFFDQDKFYPTFKPIFKDEKLSQSLKYLRLNDYEIRDIDQDVHGVIFQNPFPLANSQHRCAIKSGALIKFKRTDGNALLDKLEVNLLNCPHSNCKKLLEVILEEFRNLAGLNTWFGVSNGENAHIPWHVLAVKKMMRTMVHTKVEIVD
Length1372
PositionKinase
OrganismKazachstania africana (strain ATCC 22294 / BCRC 22015 / CBS 2517 / CECT 1963 / NBRC 1671 / NRRL Y-8276) (Yeast) (Kluyveromyces africanus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.09
Grand average of hydropathy-0.386
Instability index41.09
Isoelectric point5.28
Molecular weight154450.65
Publications
PubMed=22123960

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

>MDP28904
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     489.72|     130|     152|     329|     480|       1
---------------------------------------------------------------------------
  329-  457 (174.23/119.64)	............................GTNPMSSGGGYTEQFQQSYKGPF.SGSGHPSINASPSIHSASNHINTDISpnGLGIDktvLPTDTFSNELFSSPSM...........SRVSGRKKITVSNNSKISHGNELFNgRSIDDTNTVDI.SPLKSEIDSFimmePPI
  458-  608 (179.04/118.18)	EPPIENISDDKdlfgeddededlnntatGTNPATNLNSYNIDGDEDLFGER.NET..PASVPKEVTKGGSDEITEDMF..GMSED......DEETGRHSSTPAMyymnpntdltkSSVKKRKYLDIPIDEMTLSNSPLYQ....DPGAPLPIeTPRDKRKSVF....APL
  611-  699 (136.46/75.41)	NPIIENNVDNK........................................yKNGGKFSF..SPAIKEEA..................LNFDVMQGELSSSEDE...........ESESSFDADQYNNMNQELKSME....DSVHDTNFLNY.QPIQGVQDSV....PP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.70|      23|      31|     726|     756|       2
---------------------------------------------------------------------------
  727-  753 (31.41/33.13)	SEI......VTNEsplKTAEPSLPSlEPNL..STK
  757-  787 (29.30/ 7.44)	SEIsafaddVVRE...KSGSVSPPS.DTGLqeATK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.16|      12|      31|     892|     903|       3
---------------------------------------------------------------------------
  892-  903 (22.29/12.26)	QIISKFYSINHP
  921-  932 (22.88/12.79)	QIFGKYLNSRPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.32|      23|      32|    1122|    1147|       4
---------------------------------------------------------------------------
 1122- 1147 (34.25/31.78)	YIHLA...YSRSIDKQWvfaALSDS.EGKE
 1154- 1180 (30.07/18.74)	YVGTSktlFDEACNQLW...SLSLSlAGKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.97|      15|      37|     175|     189|       5
---------------------------------------------------------------------------
  175-  189 (27.07/17.64)	PLREENLNEAFFRSH
  215-  229 (24.90/15.59)	PLNAELLLKTLKHSH
---------------------------------------------------------------------------




































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 MDP28904 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FDVMQGELSSSEDEESESSFDADQYNNMNQELKSMEDSVHD
2) LKSEIDSFIMMEPPIEPPIENISDDKDLFGEDDEDEDLNNTATGTNPATNLNSYNIDGDEDLFGERNETPASVPKEVTKGGSDEITEDMFGMSEDDEETGRHSSTPAMYYMNPNT
3) SRVSGRKKITVSNNSKISHGNELFNGRSIDDTNTVDIS
4) TPGSITNLGTNPMSSGGGYTEQFQQSYKGPFSGSGHPSINASPSIHSASNHINTDI
641
443
404
321
681
557
441
376










Molecular Recognition Features






MoRF SequenceStartStop




1) KYLDIPIDEM
568
577