<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 MDP24556

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAVQQDASMEEILWRSPPHVQMMGGFLHSNNKSPFFDATSNNASLVIQANYNEAFRHFVETREAFENRLRTMQGLEFVVAYDPLQAAAQSDTKFAHEPSNIWVIHKQMRRKRAGQEDEIVVLSTFFVVGDCIYMAPSVASVVGNRILSAVTSLTSLLKTASTLPTFTPSHGHTYLPPAPKPADGGQPGLASQQSKENTPMPDAENSARVPLVGSQTGNTASTFQDTRTLAESFNLFVRYENEYMDESPLVGEPGSFIMSKSTETGAAKQPPIPVPMRTETPVVRVDTPGKVPEKVGTPLSSDESRLKKKKGRAGS
Length315
PositionHead
OrganismAspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus> Aspergillus subgen. Fumigati.
Aromaticity0.07
Grand average of hydropathy-0.425
Instability index53.26
Isoelectric point6.40
Molecular weight34443.46
Publications
PubMed=18404212

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. 
ECO:0000256	PIRNR:PIRNR013286
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

>MDP24556
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.29|      14|      15|     262|     275|       1
---------------------------------------------------------------------------
  262-  275 (26.60/13.30)	TETGAAK.QPPIPVP
  278-  292 (21.69/ 9.73)	TETPVVRvDTPGKVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.62|      16|      17|      89|     104|       2
---------------------------------------------------------------------------
   89-  104 (29.19/21.73)	QSDTKFAHEPSNIWVI
  107-  122 (26.43/19.04)	QMRRKRAGQEDEIVVL
---------------------------------------------------------------------------




































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 MDP24556 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SPLVGEPGSFIMSKSTETGAAKQPPIPVPMRTETPVVRVDTPGKVPEKVGTPLSSDESRLKKKKGRAGS
2) TPSHGHTYLPPAPKPADGGQPGLASQQSKENTPMPDAENSARVPLVGSQTGNTASTFQD
247
167
315
225










Molecular Recognition Features






MoRF SequenceStartStop




1) FNLFVRYE
2) KVGTPLSSDESRLKKKKGRAG
233
294
240
314