<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 MDP04006

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSHTSDAGTSSLPAPTKEVELSVEPVHIYTDPDPYPSNTTGASHSIIDAFERERKLQDITADGTNVFATRKPASVQLGEDVRRLWAERGDFSRFSTSQLTRNKREREQESVASSSSDDDEEEGEGGGKGKMKDEDSEATAGLLRKTGEKVGGTIAESEFVEMRDTVLGNLDVAHFNSIHAHQLLGMLIKQHRSSNQSSNNTAAGRLGSPAPSVGGQSVRSSTTTTAAAPTKAPLGIFSNLTTSREEEFVLDPLAISLSRTSLNASTAAQREIESAPGFQESKLREFKVVLETKRKAIANAAELLSSAAQELRASQAPNRERWRALIGLHGRGWGLTPGRPLLDVERFGVSANDEEHEVEEGDAEKSTPTVADGEAGGTKKTKSGKKKPKKAAAAGLQGFGMPIITSDGKVKEEGARDAWIGFGLPEAPIELRRRSLAYWADSPSSAGMTAEEIKSKLVFPDRMHRRLRVRFILWPPTGGPQEKDAERVEWSSDPTTSNTEGQKEDGTAGAVVAGAVLDQELQQASREATDELVFGDVVAQARKLPPSFGVRLTAASVRIVPTKRLDLVVELVPTSPSTSHSGTPPSEPTHPENTKYSSHASLLLAFLRMGPLRKYQTFVSATEQARRSDAVARAAAIKAVALAVPKKSTTSKTDASSAAGKGIAAGGKATASALAKLDSVGPVLVGLHYWSFVYRLGKVLGGLQRRAGEKGLAVGVQIVPVTDIASNARGGLRKFVQVMGGVVEGTPSRENSTQGTALEILQGFGKVYLEKNQTRRLVCTLSFAQPSLLSVQFAKTARDATPQRVKLTTKPLAVDLDTLHRLLVQQLDL
Length829
PositionHead
OrganismSporisorium scitamineum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Sporisorium.
Aromaticity0.05
Grand average of hydropathy-0.432
Instability index46.13
Isoelectric point8.93
Molecular weight88748.70
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the regulated transcription of nearly all RNA polymerase II-dependent
genes. Mediator functions as a bridge to convey information from gene-
specific regulatory proteins to the basal RNA polymerase II
transcription machinery. Mediator is recruited to promoters by direct
interactions with regulatory proteins and serves as a scaffold for the
assembly of a functional preinitiation complex with RNA polymerase II
and the general transcription factors. 


ECO:0000256	RuleBase:RU364140

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

>MDP04006
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     293.69|      83|     140|     290|     376|       1
---------------------------------------------------------------------------
   85-  126 (39.58/15.34)	.................................................WAERG.....DFSRFSTSQltrNKREREQESVASSSSDDDEEEGEGG
  290-  376 (136.10/82.68)	LETKRKAIANAAELLSSA...AQELRASQA.PNR..ERWRALIGLhgrgWGLTPGRPLLDVERFGVSA...NDEEHEVEEGDAEKSTPTVADGEAG
  429-  509 (118.00/63.23)	IELRRRSLAYWADSPSSAgmtAEEIKSKLVfPDRmhRRLRVRFIL....WPPTGGPQEKDAERVEWSS....DPTTSNTEGQKE.......DGTAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.02|      38|     558|      15|      57|       2
---------------------------------------------------------------------------
   15-   52 (71.69/39.25)	PTKEVELSVEPVHIYTDPDP...........YPSNTTGASH.SIIDAFER
  561-  608 (50.13/24.01)	PTKRLDLVVELVP..TSPSTshsgtppseptHPENTKYSSHaSLLLAFLR
  610-  633 (31.20/13.45)	.........GPLRKY...QT...........FVSATEQARR.S..DAVAR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     159.62|      53|     558|     141|     202|       3
---------------------------------------------------------------------------
  141-  202 (75.24/61.32)	GLLRKTGEKvgGTIAESEFVEMRD...TVLGNLDvaHFnsihaHQLLGMLIKQHRSSNQSSNNTA
  702-  757 (84.38/46.74)	GLQRRAGEK..GLAVGVQIVPVTDiasNARGGLR..KF.....VQVMGGVVEGTPSRENSTQGTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.55|      21|      22|     381|     402|       4
---------------------------------------------------------------------------
  381-  402 (35.08/20.60)	TKSGKKKPKKAAAAGLqGFGMP
  405-  425 (40.47/19.83)	TSDGKVKEEGARDAWI.GFGLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.62|      17|      17|     220|     236|       5
---------------------------------------------------------------------------
  220-  236 (27.84/15.21)	SSTTTTAAAP.TKAPLGI
  238-  255 (19.78/ 8.59)	SNLTTSREEEfVLDPLAI
---------------------------------------------------------------------------




































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 MDP04006 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MLIKQHRSSNQSSNNTAAGRLGSPAPSVGGQSVRSSTTTTAAAPTKAPLGI
2) MSHTSDAGTSSLPAPTKEVELSVEPVHIYTDPDPYPSNTTGASHSIIDAFERERK
3) PQEKDAERVEWSSDPTTSNTEGQKEDGTAGAVVAGAV
4) STSQLTRNKREREQESVASSSSDDDEEEGEGGGKGKMKDEDSEATAGLLRKTGE
5) VERFGVSANDEEHEVEEGDAEKSTPTVADGEAGGTKKTKSGKKKPKKAAAAGLQG
186
1
480
95
344
236
55
516
148
398










Molecular Recognition Features






MoRF SequenceStartStop




1) DRMHRRLRVRFILWPPT
2) EVELSVEPVHIY
3) KSGKKKPKKA
461
18
382
477
29
391