<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 MDP33834

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMPPPLPPPDEQEFDQPQLIGGLPTPDLHAGNNLFWYFTSSPWFDSECINIDVYLNLRQNDPAVAEKIMNDPKLWQQRLDDQSEGTQYVIAGEGQGEGHPWLLQRQHKVRVTENDKERIENFVEGNWYTHGTKMLMAPSLLDIVQSRMLTVSTRMQQMAELSKNMTHWTPATGYSYFPSSYETAKATTTASRVGSPTLAPTDADAPGSQSQGAGVAAQATDSAASATDFSDALFMHSLNLTNAYGDEYMDENPLKGEPGAFVFEGTKTAVTARNKAQEQQSIQAVQPAPAAPTELKIDTATPSVAPSVVATPKAVATPGAMEGHSRKSSVAPGSKKKKDRRKSQAGLASPTTPSVPQA
Length357
PositionHead
OrganismBipolaris oryzae ATCC 44560
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Pleosporaceae> Bipolaris.
Aromaticity0.07
Grand average of hydropathy-0.589
Instability index52.09
Isoelectric point5.23
Molecular weight38645.61
Publications
PubMed=23357949

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:RU364143
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

>MDP33834
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.29|      17|      20|     120|     136|       1
---------------------------------------------------------------------------
  120-  136 (33.25/24.98)	NFVEGNWYTHGTKM.LMA
  141-  158 (25.04/17.15)	DIVQSRMLTVSTRMqQMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.07|      15|      16|     190|     204|       2
---------------------------------------------------------------------------
  190-  204 (26.01/13.52)	SRVGSPTLAP..TDADA
  207-  223 (19.06/ 8.11)	SQSQGAGVAAqaTDSAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.67|      35|      59|     257|     291|       3
---------------------------------------------------------------------------
  257-  291 (59.43/37.05)	PGAFVFEGTKTAVT.ARNKAQEQQSIQAVQPAPAAP
  317-  352 (55.23/33.93)	PGAMEGHSRKSSVApGSKKKKDRRKSQAGLASPTTP
---------------------------------------------------------------------------




































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 MDP33834 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GDEYMDENPLKGEPGAFVFEGTKTAVTARNKAQEQQSIQAVQPAPAAPTELKIDTATPSVAPSVVATPKAVATPGAMEGHSRKSSVAPGSKKKKDRRKSQAGLASPTTPSVPQA
2) KATTTASRVGSPTLAPTDADAPGSQSQGAGVAAQATD
244
184
357
220










Molecular Recognition Features






MoRF SequenceStartStop




1) GAMEGHSRKSSVAPGSKKKKDRRKSQAGLAS
2) LKIDT
318
294
348
298