<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 MDP07766

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMADRCSLKECLQESTEDLEATIKMIIAFVLDKDRSCGSLTSLCESFRKKHAELTKLLAKVPAYQQREREIRRLEAEVEARDKVLGDLQKQLMAAEKLITKMVFQADKKVKEMRQSEANRVNSETIIRFANQISRTYAVAAPLGWQLGDTSRPYPTEAELRLSALAAPRVIVQAAPPALSLLRQPTASTSGILRGSGRGASPMTSFSTAMQQQQRSWSPRSTFVQQSSSPRGRNAAGRGNIISPRINAAPGASLLQRRPSMTGSSPHLSSPSSSYQGSIREGLPPPVTNVEQMSSDSSSSSSSDEGSPS
Length308
PositionMiddle
OrganismOnchocerca ochengi (Filarial nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Spiruromorpha> Filarioidea> Onchocercidae> Onchocerca.
Aromaticity0.04
Grand average of hydropathy-0.505
Instability index70.35
Isoelectric point9.75
Molecular weight33509.59
Publications
PubMed=22919073

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:RU364141
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
>MDP07766
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     109.37|      28|      39|     176|     214|       1
---------------------------------------------------------------------------
  176-  201 (40.87/14.62)	......PALSLLRQPT........ASTSGILRGSGR.G..ASP
  213-  243 (36.10/26.37)	QR.swsPRSTFVQQ.S........SSPRG.RNAAGR.GniISP
  244-  284 (32.40/ 7.34)	RInaapGASLLQRRPSmtgssphlSSPSSSYQGSIReG..LPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.85|      21|      39|      55|      76|       3
---------------------------------------------------------------------------
   55-   76 (29.50/28.36)	KLLAKVpAYQ..QREREIRRLEAE
   96-  118 (30.35/22.39)	KLITKM.VFQadKKVKEMRQSEAN
---------------------------------------------------------------------------




































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 MDP07766 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RQPTASTSGILRGSGRGASPMTSFSTAMQQQQRSWSPRSTFVQQSSSPRGRNAAGRGNIISPRINAAPGASLLQRRPSMTGSSPHLSSPSSSYQGSIREGLPPPVTNVEQMSSDSSSSSSSDEGSPS
182
308










Molecular Recognition Features






MoRF SequenceStartStop




1) IREGLPPPVTNV
278
289