<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 MDP25667

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMATDEEVAWCAELRRAVTSLQDSIDAARSFDHVRLPADGPVSAADVVEYARRISYTTFAPAGYQPGAPLHGIMPPAPQDEHFAASHLAAHAAQARQREEARRAREKAAEEARKAASRGEMPPIETVIKLLSAWKPGQPWPAGIPAPPPGWKPGDPLHLGAPKPKDDGGKGSVRVEPPARVVPAAVTAPPVKPAKPVMPKVPFVKIDLHSDSDEFEEVSASDYSSDSD
Length227
PositionMiddle
OrganismMicromonas commoda (strain RCC299 / NOUM17 / CCMP2709) (Picoplanktonic green alga)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Chlorophyta> Mamiellophyceae> Mamiellales> Mamiellaceae> Micromonas.
Aromaticity0.06
Grand average of hydropathy-0.508
Instability index61.61
Isoelectric point5.83
Molecular weight24261.02
Publications
PubMed=19359590

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
>MDP25667
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     109.72|      14|      14|     133|     146|       1
---------------------------------------------------------------------------
   63-   77 (23.57/ 7.00)	YQPGAPLH.GImpPAP
  133-  146 (34.28/12.83)	WKPGQPWPAGI..PAP
  150-  163 (30.05/10.53)	WKPGDPLHLGA..PKP
  175-  188 (21.82/ 6.05)	EPPARVVPAAV..TAP
---------------------------------------------------------------------------




































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 MDP25667 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) QPGAPLHGIMPPAPQDEHFAASHLAAHAAQARQREEARRAREKAAEEARKAASRGEMP
2) QPWPAGIPAPPPGWKPGDPLHLGAPKPKDDGGKGSVRVEPPARVVPAAVTAPPVKPAKPVMPKVPFVKI
64
137
121
205










Molecular Recognition Features






MoRF SequenceStartStop




1) IETVIKLLSAWK
2) VEPPARVVPAAVTAPPVKPAKPVMPKVPFVKIDLHSDSDEFEEVSASDYSS
123
174
134
224