<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 MDP26679

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAPQIPPLDEQEFDQPALIAGLPGQNLNVGNNLFWYFTSSPWFEPQSINISVFQNVQLSPDGQQIMNDRALWEERLRAVEAGTQFIVTAEPQGEGQPWVLQRQNKRHNHETGRPAGCDAESHAHHLDAHAANGRSGKQHDTLDPSHRLLLLTALPPKLPSQTAAPTSRIGSPSLAPTDPDAALSQTAPTSVPPAADPVASTVEFSDALFMQSLHLTDKYGDEFMDENPLKGEPGAFVFENTKTAVDARNKAQEQAAQASHTAAPAATTAATTATARPDTRPPSIAPPSTAPTPAVIGTPAATEAHSRKGSVAPAPARKKDKSRRKSQTGLASPTTPKAL
Length339
PositionHead
OrganismLeptosphaeria maculans (strain JN3 / isolate v23.1.3 / race Av1-4-5-6-7-8) (Blackleg fungus) (Phoma lingam)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Leptosphaeriaceae> Leptosphaeria> Leptosphaeria maculans species complex.
Aromaticity0.05
Grand average of hydropathy-0.579
Instability index54.06
Isoelectric point5.99
Molecular weight36094.67
Publications
PubMed=21326234

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:RU364143
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

>MDP26679
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.21|      17|      21|     261|     277|       1
---------------------------------------------------------------------------
  160-  176 (28.73/10.87)	SQTAAPTSRIGSP.SLAP
  265-  282 (24.48/ 8.17)	AATTAATTATARPdTRPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.65|      13|      15|      95|     107|       2
---------------------------------------------------------------------------
   95-  107 (25.14/15.62)	GQPWVLQRQNKRH
  112-  124 (24.51/15.05)	GRPAGCDAESHAH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.97|      16|     118|     179|     194|       5
---------------------------------------------------------------------------
  179-  194 (30.88/12.68)	PDAALSQTAPTSVPPA
  299-  314 (24.09/ 8.42)	PAATEAHSRKGSVAPA
---------------------------------------------------------------------------




































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 MDP26679 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LTDKYGDEFMDENPLKGEPGAFVFENTKTAVDARNKAQEQAAQASHTAAPAATTAATTATARPDTRPPSIAPPSTAPTPAVIGTPAATEAHSRKGSVAPAPARKKDKSRRKSQTGLASPTTPKAL
2) TQFIVTAEPQGEGQPWVLQRQNKRHNHETGRPAGCDAESHAHHLDAHAANGRSGKQHDTLDPSHRLLLLTALPPKLPSQTAAPTSRIGSPSLAPTDPDAALSQTAPTSVPPAADPVASTVE
215
83
339
203










Molecular Recognition Features






MoRF SequenceStartStop




1) GTPAATEAHSRKGSVAPAPARKKDKSRRKSQTGLAS
297
332