<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 MDP26888

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDVGEYETNTFVVSNIASIAFRVYRPVVSSSPSVYTSSAPDVEKALRNDGHLVFADTRRQCIWCFRLMRRDGSAMGSPAKSELATTMDVGPYKLIAVDDGAFEPISLLKGSGGRPHNTVAVNTPNSSSSAVSAFDSTARSTTGPASQSAGLLPLSQTSNISAAASDLDTHSVHSQAATQPDQKGLLPVSAKVVYNFFISAVLAGLSSAYCAKARAIALNSRTLLLPPLDPLWDGDERSRSDGRALIATLRVTLTTAGSLLLYISHTVLHGMGCSEWACYAGIPPEGCAVLTAPWGKFATVRGVYQPPMPAGMGLKRKQVSATSAPLMWKNFASKMLETRGISPVILQNSSWLRIEFSLSEEAPNDVPVVMLWPSVLCFWSLESPTITTAPSQRLDPLSDIREAYLEETKEDDPAAKLEDMDVPMEDIQMVADDKGKRSVDRQPLSGALNTYNNVSINSAAAAAAAASANSAALGAMYPTPPDGVLNAVGVTPTFDGSTSSPGNMASTTALAYLDGSVPQLGAHDASLGDFWDSGEPKREEQEEPFTAEPDALFGDIGADIFGDDITDADFNFFDEKPDRADAGASSAVSDKMDMVESPQQASPQADQQEPPPTEVPQMEEAVPEEKTPSRPESPVFAKPELKNARSNLPGESQAVKPASNALDTKPVAAGIKRPPSPFDALTVFKRIRATTEDSKSQKVAPKQPFARRGNLFQGLKFSDFMIENNKKYEQNGKFGFRWPHPETDMLSDLSMVTSPTAFRRPTGKQANPSDSSPEWAALITSITRGLKSSSLQAQSFLDDSEDSSSGSSEDALSSEDTDDDDEAMTVSSAPRKPDMSESMPTPEAAAELSRAYSEGVWDVPIARYFVDPMPPPTELAYTDNDVIDVAQILTQQVTRMTIRSGFDEDEARDLQKTKLRNTLLQRIRYSVATLHDVLPAALDEATRCSLKPYLDVQDIPLLVQPARPRQPLGQEQLRPNVFHIPTPHVEIQRHEWTLSLAPTAIDFWDTLALEPLHGSKEIRAVCVYPDFDGLDDEVNGFLNRMRIVYESLRLGSHDRLSEKSGHVTEGMVSFDARVSSGTPSGIATPRPEFAGADQVHRLAQALAAEDAQGKSLVVYFVYCEEVTGAVVDACLAFQRLSQLYEMAVTGCSSEPGDLVLQLIPTSFLASPTALVVPTPADLLRLSLEVYDRCASARGPRPAPAFLLEQPPPRMLDLRLSATPSVDVQRENSCIHVAYARSTDERWMTAAWTDSSGWRQFSSAYWVGRKGRLPATSFAAVAQEIWDNTCAIVGNLKVNWRAIITKCGPMEPEEMEAWTELAKAETRASISVTLVTVDTQPCLELIPPVVMVPPTVLPLLSAATPAPTPQASAVFSPEQSGNPSADANLAAAGADPNAVAEIDGNVALVDVTDNAWGAIASHRLNIAATWIDQRPALVSGYLVKRGGLGRDDAPVVLEVNVIRTEGSPRTYEQLVRELLSSFRGLGTLARARGILDGERDVRPWHIAAAERAAKALCRWM
Length1515
PositionKinase
OrganismGrosmannia clavigera (strain kw1407 / UAMH 11150) (Blue stain fungus) (Graphiocladiella clavigera)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Ophiostomatales> Ophiostomataceae> Grosmannia.
Aromaticity0.07
Grand average of hydropathy-0.248
Instability index47.66
Isoelectric point4.85
Molecular weight163634.28
Publications
PubMed=21262841

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

>MDP26888
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     391.12|     148|     855|      78|     528|       1
---------------------------------------------------------------------------
  160-  259 (104.80/365.93)	ISAAASDLDTHSVHSqAATQPDQKGLLPVSAkvvynffISAVLAGLSSAYCAKARAIALNSRTLLLP..PLDP....LWdgDERSRSDGRALIATLRVTLTTAGSL...............................................................................................................................................................................
  363-  427 (50.85/86.61)	..........................................................................................................llyishtvlhgmgcsewacyagippegcavltapwgkfatvrgvyqppmpagmglkrkqvsatsaplmwknfaskmletrgispvilqnsswlriefslseeaPndvPVVMLWPSVLCFWSLESPTITT......APSQRLDPLSDireAYLEETKEdDPAAKLE.DMDVPMEDI
 1243- 1406 (235.47/ 0.00)	MTAAWTDSSGWRQFS.SAYWVGRKGRLPATS.......FAAVAQEIWDNTCAIVGNLKVNWRAIITKcgPMEPeemeAW..TELAKAETRASISVTLVTVDTQPCL....................................................................................................eliP...PVVMVPPTVLPLLSAATPAPTPqasavfSPEQSGNPSAD...ANLAAAGA.DPNAVAEiDGNVALVDV
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.85|      21|      25|     616|     639|       2
---------------------------------------------------------------------------
  596-  628 (28.67/ 8.46)	ESPQQASPqadqqeppptevPQ.MEEA...VPEEKTP
  632-  654 (22.90/12.42)	ESPVFAKP..............eLKNArsnLPGESQA
  754-  773 (30.28/12.44)	.SPTAFRR............PT.GKQA...NPSDSSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.49|      24|      25|     527|     550|       3
---------------------------------------------------------------------------
  527-  550 (44.16/25.25)	LGDFWDS..GEPKREEQEEPFTAEPD
  553-  578 (37.34/20.20)	FGDIGADifGDDITDADFNFFDEKPD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.51|      22|     366|     469|     520|       4
---------------------------------------------------------------------------
  475-  496 (42.67/24.54)	AMYPTPPDGVLNAVGVTPTFDG
 1008- 1029 (41.84/ 6.05)	ALEPLHGSKEIRAVCVYPDFDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.28|      14|      16|     295|     308|       5
---------------------------------------------------------------------------
  295-  308 (27.44/19.28)	G.KFATVRGVYQPPM
  313-  327 (18.84/10.32)	GlKRKQVSATSAPLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.91|      18|     366|     501|     520|       6
---------------------------------------------------------------------------
  501-  520 (28.35/22.29)	PgnMASTTALAYLDG...SVPQL
  868-  888 (30.56/16.82)	P..MPPPTELAYTDNdviDVAQI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.47|      44|     856|      78|     124|       7
---------------------------------------------------------------------------
   78-  124 (68.59/48.43)	PAKSELATTMDVGPYklIAVDDGAF..EPISLLKGSGG...RPhNTVAVNTP
  935-  983 (72.88/41.37)	PAALDEATRCSLKPY..LDVQDIPLlvQPARPRQPLGQeqlRP.NVFHIPTP
---------------------------------------------------------------------------




































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 MDP26888 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DADFNFFDEKPDRADAGASSAVSDKMDMVESPQQASPQADQQEPPPTEVPQMEEAVPEEKTPSRPESPVFAKPELKNARSNLPGESQAVKPASNALDTKPVAAGIKRPPS
2) DMLSDLSMVTSPTAFRRPTGKQANPSDSSPEWAAL
3) HDASLGDFWDSGEPKREEQEEPFTAEPDALFG
4) LSDIREAYLEETKEDDPAAKLEDMDVPMEDIQMVADDKGK
5) SLQAQSFLDDSEDSSSGSSEDALSSEDTDDDDEAMTVSSAPRKPDMSESMPTPEAAAELSR
6) VLNAVGVTPTFDGSTSSPGNMASTTALAYL
567
744
523
397
790
484
676
778
554
436
850
513










Molecular Recognition Features






MoRF SequenceStartStop




1) IARYF
2) KFGFRW
3) PFDALTVFKRIRAT
861
733
677
865
738
690