<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 MDP02335

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMSGILLAPLNELQALSHTLFLSLSPAQTKPPPPPPLSAFLACDKALSDAVNLAYKHQLSQRRIDELEGQILQLESQWREVCIELEAGKRELEEIIAEGEERIKAIEKAKEASIPYPELLAYAQSLSAFTSAPPNMPDLNLPGQPPPPLFFPPFPNEEKMRRGRLNAEAPLGLLGETHSVGRPPTLSPKKEQQPPQQLGHGANPYRHDLRAPGPHPQFFDLDLDLNPDL
Length228
PositionMiddle
OrganismAmanita muscaria Koide BX008
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Amanitaceae> Amanita.
Aromaticity0.06
Grand average of hydropathy-0.480
Instability index68.44
Isoelectric point5.19
Molecular weight25196.46
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

>MDP02335
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.02|      24|     111|       8|      36|       1
---------------------------------------------------------------------------
    8-   31 (42.26/13.25)	PLNELQALSHTLF..LSLSPAQTKPP
  114-  133 (35.47/ 9.55)	PYPELLAYAQ......SLSAFTSAPP
  169-  193 (35.29/13.70)	PLG.LLGETHSVGrpPTLSPKKEQQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.54|      12|      67|     137|     150|       2
---------------------------------------------------------------------------
  137-  150 (23.26/12.64)	DLNLPGqpPPPLFF
  207-  218 (27.28/ 9.35)	DLRAPG..PHPQFF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.92|      10|      16|      65|      74|       4
---------------------------------------------------------------------------
   65-   74 (16.61/ 9.59)	ELEGQILQLE
   83-   92 (16.31/ 9.31)	ELEAGKRELE
---------------------------------------------------------------------------




































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 MDP02335 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SAPPNMPDLNLPGQPPPPLFFPPFPNEEKMRRGRLNAEAPLGLLGETHSVGRPPTLSPKKEQQPPQQLGHGANPYRHDLRAPGPHPQFFDLDLDLN
130
225










Molecular Recognition Features






MoRF SequenceStartStop




1) DLDLDL
2) YRHDLR
219
204
224
209