<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 MDP10984

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYMDERFERVQRALTSLIDSITKYTPSTTQAHDLAAADKELSDGLTELQTHQNNLLRIQELRKETEDLDAQIKSTVSLLWSTRKEITGTPTTSYPSSGPRYDFTYTDLLNYARRISPYTLPPPGVTNGVDLSAPPADQQATASAEQTPVTATSDSVPAPNGAAVASTASQPTDPSQPDAAPQQTSFSTALPEHMTEAVNLLEGAVFYPWPGEERIRSGALDLCQRLADAGVDPKGYDPEEQERQRQAEAEERKRREAIEDAERKRREEERFAQMARERAAAAERERLMSHDAGGAGQASPGAAGRQEKKQFQFMGGLDDDEDED
Length326
PositionMiddle
OrganismConiochaeta ligniaria NRRL 30616
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Coniochaetales> Coniochaetaceae> Coniochaeta.
Aromaticity0.06
Grand average of hydropathy-0.896
Instability index54.06
Isoelectric point4.68
Molecular weight35945.89
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

>MDP10984
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.70|      18|      19|     241|     258|       1
---------------------------------------------------------------------------
  214-  238 (22.54/ 9.82)	EERIRsgaldlcQRLADAGVDPKGY
  241-  258 (31.16/16.08)	EEQER.......QRQAEAEERKRRE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.60|      19|      19|     278|     296|       3
---------------------------------------------------------------------------
  278-  296 (30.86/16.62)	RERAAAAER.ERLMSHDAGG
  299-  318 (27.73/14.25)	QASPGAAGRqEKKQFQFMGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.02|      12|      15|      85|      96|       4
---------------------------------------------------------------------------
   85-   96 (21.46/13.33)	RKEITGTPTTSY
  102-  113 (22.56/14.33)	RYDFTYTDLLNY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      66.16|      15|      31|     152|     166|       5
---------------------------------------------------------------------------
  152-  166 (23.60/12.95)	TATSDSVPAPNGAAV
  170-  183 (18.45/ 8.46)	ASQPTDPSQPDAAP.
  186-  200 (24.12/13.41)	TSFSTALPEHMTEAV
---------------------------------------------------------------------------




































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 MDP10984 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SGALDLCQRLADAGVDPKGYDPEEQERQRQAEAEERKRREAIEDAERKRREEERFAQMARERAAAAERERLMSHDAGGAGQASPGAAGRQEKKQFQFMGGLDDDEDED
2) TLPPPGVTNGVDLSAPPADQQATASAEQTPVTATSDSVPAPNGAAVASTASQPTDPSQPDAAPQQTSFSTALPEHMT
219
121
326
197










Molecular Recognition Features






MoRF SequenceStartStop




1) AAAERERLMSHDAG
2) SPGAAGRQEKKQFQFMGGLDDDEDED
3) YDFTYTDLLNYARRI
282
301
103
295
326
117