<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 MDP26596

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMMRSDERSLRDLLLESADDLEHVLKMIVDTLINREKSVMLKNGESVTNIIKLFDSKQEIIKTLLKKVPEYQERENLIRTLKGHVEKRDAVIQQVENNLKACEVALTRSCFHANLKLKQMSEAALRPVNSEILIKMAHQISKHNSVSAPLTWQIGDPSRPFPQEHEFRAGHLLNQKVQSSGPQLLPGKNVAQRPLITSPSASSSNGGAAPIRTVGTPLINSAPDGEYSPRTGYGAEKTPPIQQQVLRGATPNEKQWQNPGASGTASSQSPYNRLSQSPSSSPNVKLKIIGLPTRVGGMDQVQDVRDIEQMSSDSSNSSDSSDDEGASKKTGGSNKS
Length335
PositionMiddle
OrganismCaenorhabditis remanei (Caenorhabditis vulgaris)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.03
Grand average of hydropathy-0.651
Instability index55.83
Isoelectric point9.07
Molecular weight36632.90
Publications
PubMed=26114425
PubMed=26394399

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

>MDP26596
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.41|      15|      15|      53|      67|       1
---------------------------------------------------------------------------
   53-   67 (23.21/14.66)	FDSKQEIIKTLLKKV
   70-   84 (25.21/16.40)	YQERENLIRTLKGHV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.11|      14|      15|     193|     206|       2
---------------------------------------------------------------------------
  193-  206 (24.41/11.73)	PL..ITSPSASSSNGG
  209-  224 (20.70/ 9.09)	PIrtVGTPLINSAPDG
---------------------------------------------------------------------------




































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 MDP26596 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) TWQIGDPSRPFPQEHEFRAGHLLNQKVQSSGPQLLPGKNVAQRPLITSPSASSSNGGAAPIRTVGTPLINSAPDGEYSPRTGYGAEKTPPIQQQVLRGATPNEKQWQNPGASGTASSQSPYNRLSQSPSSSPNVKLKIIGLPTRVGGMDQVQDVRDIEQMSSDSSNSSDSSDDEGASKKTGGSNKS
150
335










Molecular Recognition Features






MoRF SequenceStartStop




1) ASKKTGGSNKS
2) NVKLKIIGLPTRVGGMDQVQDVRDIEQM
325
282
335
309