<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 MDP14769

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMMQHMPSPARLGVTASSPSLPPNQSPANPTSSPPQANPPSASAAAAAAGAGAAVPTLTTSPALLPLLPPLPRAQSLLHLISSLASNLFELSPNRAAWISSYRGSLPNFLASSSASAAPTPLPAPVSTTKEAMSMLTSLQTQLFETVAELQETLDLQDARAKLAREARAKDASLLAFAKKLREAHHVLDRLVDDYADYRRDPKRPRGAAAVDEPEPVSQGDFGASLHSKLKLDDILTYAHRISYTTFAPPEHGAGLPLRGALPPAPQDNELRMSQLYQFADLDVGVPKKPLETKEGLTAEMESMPLFELPEEEPPRPSMLPITVPPGWQKGLPALLPAFPMPPPGWKPGDPIELGGIIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
Length391
PositionMiddle
OrganismHordeum vulgare subsp. vulgare (Domesticated barley)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Hordeinae> Hordeum.
Aromaticity0.05
Grand average of hydropathy-0.243
Instability index63.11
Isoelectric point5.69
Molecular weight37944.96
Publications
PubMed=23075845

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
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP14769
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.04|      15|      15|     316|     330|       1
---------------------------------------------------------------------------
  316-  330 (30.32/13.17)	PSMLPI..TVPPGWQKG
  332-  348 (28.73/12.04)	PALLPAfpMPPPGWKPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     159.97|      53|     216|      38|      93|       2
---------------------------------------------------------------------------
    7-   55 (53.72/14.76)	....SP....ARLGVTassPSLPPNQSPANPTSS..................ppqanPP.SASAAAAAAGAGAAVP
   56-  124 (69.60/26.54)	TLTTSP....ALLPLL...PPLPRAQSLLHLISSLasNLFELsPNraawissyrgslPNfLASSSASAAPTPLPAP
  269-  314 (36.66/ 7.87)	ELRMSQlyqfADLDVGvpkKPLETKEGLTAEMESM..PLFEL.PE..........eePP.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.29|      23|      23|     216|     238|       3
---------------------------------------------------------------------------
  216-  238 (38.55/18.47)	VSQGDFGASLH.SKLKLDDILTYA
  241-  264 (37.74/17.94)	ISYTTFAPPEHgAGLPLRGALPPA
---------------------------------------------------------------------------




































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 MDP14769 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KKPLETKEGLTAEMESMPLFELPEEEPPRPSMLPITV
2) MMQHMPSPARLGVTASSPSLPPNQSPANPTSSPPQANPPSASAAAAAAGAG
287
1
323
51










Molecular Recognition Features






MoRF SequenceStartStop




1) RSQGSIQRLL
1
10