<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 MDP27952

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMEDDLARRIERVEKAVAAVVDSIANNNPSVQLAEELAAAQDDLDRGLKLFEVHQNNYARILKLREEVSQNDAKIKDVINALWSIRKELTSIPTTSQPPPGSKYSYTTDELLTYARLISRNTLPLPGVANNVAPSSTQPSKPEDTSQLQTPSQTGPTPNASFNQSFATAAASTPGPMSASTPNTTQQTSQITSPFQTKKPTTEFRIPDFLKPAVNPLHGATFQPWPTQEQIRSGGLAAVQALVDRGIDPRGYDPEEEERKRKAEEQAKKEAEEQARREREEAERRMREERERMARERERARQMEAAAGGGGLERRDSVAVGRVNKPKQFTFLGADDDDDDEDD
Length342
PositionMiddle
OrganismThielavia terrestris (strain ATCC 38088 / NRRL 8126) (Acremonium alabamense)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Thermothielavioides> Thermothielavioides terrestris.
Aromaticity0.05
Grand average of hydropathy-0.939
Instability index51.37
Isoelectric point5.10
Molecular weight37995.50
Publications
PubMed=21964414

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

>MDP27952
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      69.38|      15|      15|     271|     285|       1
---------------------------------------------------------------------------
  255-  269 (22.03/11.40)	EEERK..RKAEEQAKKE
  271-  285 (26.87/15.46)	EEQAR..REREEAERRM
  287-  302 (20.49/10.10)	EERERmaRERERA.RQM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      72.55|      15|      15|     133|     147|       2
---------------------------------------------------------------------------
  133-  147 (26.09/13.89)	PSSTQPSKPEDTSQ.L
  150-  165 (22.30/10.85)	PSQTGPTPNASFNQsF
  176-  190 (24.15/12.33)	MSASTPNTTQQTSQ.I
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.61|      21|      24|     194|     216|       3
---------------------------------------------------------------------------
  194-  216 (30.34/27.08)	FQTKkPTTEfRIPDFLKPAVNPL
  221-  241 (39.27/24.11)	FQPW.PTQE.QIRSGGLAAVQAL
---------------------------------------------------------------------------




































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 MDP27952 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LPGVANNVAPSSTQPSKPEDTSQLQTPSQTGPTPNASFNQSFATAAASTPGPMSASTPNTTQQTSQITSPFQTKKPTTEFRIPDFLKPAVNPLHGATFQPWPTQEQIRSGGLAAVQALVDRGIDPRGYDPEEEERKRKAEEQAKKEAEEQARREREEAERRMREERERMARERERARQMEAAAGGGGLERRDSVAVGRVNKPKQFTFLGADDDDDDEDD
124
342










Molecular Recognition Features






MoRF SequenceStartStop




1) ERARQMEAA
2) FRIPDF
3) GLERRDSVAVGRVNKPKQFTFLGADDDD
4) TTDELL
297
203
310
106
305
208
337
111