<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 MDP05432

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKHIDSRFERLEKALAGLIDSVAKFHPSAQFGQELEYADNELSKGLEEVQTHQNNCLRIQHLRESSAVLDAQIRDTLSSLATTRKDIVTTQTTTFPAGPIYSIAYEELLRYARRISKTTMPPAGTINALPPSPDIQTPLPDSQAMTPSAPPSSQVQSPAVPNGTPQMISEPPTQQTTLSANTVLPEVMSQYLNPLSGQLFFPWPLEDKIRAGSLASNQVLVERNIDPKGYDPVEEEERKRREEEEQKEEEERKRLELEERERKMREDRERARQERERQREKDQAEWRRASIAGDPLQPVPNRAAGSATTKQFQFTNLDDLDDDDDED
Length328
PositionMiddle
OrganismNeonectria ditissima
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Neonectria.
Aromaticity0.05
Grand average of hydropathy-0.960
Instability index64.60
Isoelectric point4.84
Molecular weight37261.84
Publications









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

>MDP05432
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.66|      19|      23|     131|     152|       1
---------------------------------------------------------------------------
  131-  149 (37.27/12.85)	PPSPDIQTP.LPDSQAMTPS
  151-  170 (32.39/17.05)	PPSSQVQSPaVPNGTPQMIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.65|      21|      23|     235|     257|       2
---------------------------------------------------------------------------
  235-  255 (36.59/21.96)	EEEERKRREEEEQ.KEEEERKR
  259-  280 (34.06/14.38)	EERERKMREDRERaRQERERQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.60|      22|      30|      40|      61|       3
---------------------------------------------------------------------------
   40-   61 (36.38/26.79)	DNELSKGLEEVQTHQNNCLRIQ
   71-   92 (33.22/23.88)	DAQIRDTLSSLATTRKDIVTTQ
---------------------------------------------------------------------------




































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 MDP05432 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSLASNQVLVERNIDPKGYDPVEEEERKRREEEEQKEEEERKRLELEERERKMREDRERARQERERQREKDQAEWRRASIAGDPLQPVPNRAAGSATTKQFQFTNLDDLDDDDDED
2) MPPAGTINALPPSPDIQTPLPDSQAMTPSAPPSSQVQSPAVPNGTPQMISEPPTQQTTLSANTVLPEVMS
213
121
328
190










Molecular Recognition Features






MoRF SequenceStartStop




1) AEWRRASIAGDPLQPV
2) GSATTKQFQFTNLDDLDD
285
306
300
323