<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 MDP28737

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDTYIDGRFERLEKALATLIDSVTKYHPSAIQAEELKAADNELCKGLEQVEIHQNNHLKILQLRQLSTSLDAQIRETLSSLATTRKDIVNTQVTIYPSEPNFPILYEELLGHARRISKTSMPPAAILNAMAATQESQTPLPDSQAQSAMTPSAQTPNPMQSPAPTNGIIEQSAQQAQASLHTTLPDNMNQFLNPLSGQLFFPWPLEDKIRSGALASNQILLEQGIDPRGYDPVAEEERKRKEEEERKEKEEKEKQERAEREKEAERHRQERQRQIEKQQAEWRRASTAVGASGDAAVAAPPSAKAEKKQFQFTNLDDLDDDDDED
Length325
PositionMiddle
OrganismHypocrea virens (strain Gv29-8 / FGSC 10586) (Gliocladium virens) (Trichoderma virens)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.04
Grand average of hydropathy-0.888
Instability index53.21
Isoelectric point4.93
Molecular weight36562.17
Publications
PubMed=21501500

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

>MDP28737
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.51|      16|      16|     240|     255|       1
---------------------------------------------------------------------------
  240-  255 (25.58/15.30)	RKEEEERKEKEEKEKQ
  257-  272 (26.93/16.48)	RAEREKEAERHRQERQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.92|      18|      18|     137|     154|       2
---------------------------------------------------------------------------
  118-  135 (28.62/12.80)	KTSMPPAAILNAMAATQE
  137-  154 (31.30/14.53)	QTPLPDSQAQSAMTPSAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.46|      15|      18|     185|     200|       3
---------------------------------------------------------------------------
  156-  170 (29.20/16.15)	PNPM.QSPAPTNGIIE
  185-  200 (24.26/17.19)	PDNMnQFLNPLSGQLF
---------------------------------------------------------------------------




































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 MDP28737 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GALASNQILLEQGIDPRGYDPVAEEERKRKEEEERKEKEEKEKQERAEREKEAERHRQERQRQIEKQQAEWRRASTAVGASGDAAVAAPPSAKAEKKQFQFTNLDDLDDDDDED
2) MPPAAILNAMAATQESQTPLPDSQAQSAMTPSAQTPNPMQSPAPTNGIIEQSAQQAQASLHTTLPDNMNQFLN
212
121
325
193










Molecular Recognition Features






MoRF SequenceStartStop




1) GDAAVAAPPSAKAEKKQFQFTNLDDLDDDDDED
2) IEKQQAEWRRASTAV
293
275
325
289