<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 MDP26878

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDRFIDARLDRVEKALATVIDSISKYNPSPALAEDLLAADRELSGGLEELQRHQQNHARILGLRADVAALDAQIKSTLLTLAASRRDMLATPATVFPGDDPTTSRGKKTRTYDFTYDQLMSYARRISRNTAPAPGQTDGTEFFSTFGGFGVGAGGGGGAATNADTTGATTAANTPATTTPGLFNGVGTEAADTPGGAAGLGETATTKVAGTPAGITAATATTAAATPVPFTSIVPPTNVPDVLPADFQQYVAPAAGTIFFPWPMPELMMHGGLRTLQSLTDQISKAGEPQPRIRFVSLQEQEEQERQQASWEAEEREAREQREAREEEQRRMAHEAAVAAAAGSSRGGGGDGSDGGAAGQPRRPAPAAAPAQFASTLDMEDDD
Length383
PositionMiddle
OrganismGrosmannia clavigera (strain kw1407 / UAMH 11150) (Blue stain fungus) (Graphiocladiella clavigera)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Ophiostomatales> Ophiostomataceae> Grosmannia.
Aromaticity0.05
Grand average of hydropathy-0.440
Instability index52.65
Isoelectric point4.78
Molecular weight40001.65
Publications
PubMed=21262841

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

>MDP26878
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.97|      26|      27|     156|     181|       1
---------------------------------------------------------------------------
  156-  180 (38.95/12.90)	....GGGAATNADTTGATTAANTPATT....TP
  181-  212 (31.68/ 9.29)	GlfnGVGTEA.ADTPGGAAGLGETATTkvagTP
  214-  240 (37.34/12.10)	G..iTAATATTAAATPVPFTSIVPPTN....VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.33|      14|      20|     300|     313|       5
---------------------------------------------------------------------------
  300-  313 (24.66/17.35)	EQEEQERQQASWEA
  323-  336 (23.67/16.36)	EAREEEQRRMAHEA
---------------------------------------------------------------------------




































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 MDP26878 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GGGGGAATNADTTGATTAANTPATTTPGLFNGVGTEAADTPGGAAGLGETATTKVAGTPAGITAATATT
2) MHGGLRTLQSLTDQISKAGEPQPRIRFVSLQEQEEQERQQASWEAEEREAREQREAREEEQRRMAHEAAVAAAAGSSRGGGGDGSDGGAAGQPRRPAPAAAPAQFASTLDMEDDD
154
269
222
383










Molecular Recognition Features






MoRF SequenceStartStop




1) GDGSDGGAAGQPRRPAPAAAPAQFASTLDMEDDD
2) MAHEAAVAAAAGSSRGG
350
332
383
348