<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 MDP27070

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMEQEDLTTMSFKDTAFLQLLGLNEHNALDYFSMSQFYDKSCLNEQLKMQVRHNELQAQQLDGRQMKGLEYTLWYFTPQPSLYVIRKQTRLSPTRVDLVAVYYIVEGTIYQSPTLCQVLANRVRTSLYFTKDALHVARESYRYNPILGHTWSNEPDLFEQLQTSLEKKQQLRSNATISDTACSSDMDMDVSKPCADELTSTANVVSLDEQHRAEIFSMTVDQLIASTETWSANAPPVSTSMDNKPETISRIHTRHTNDSPLATMEIKKEHSSPGIAKVASQQSKTSSGKRMSIQ
Length293
PositionHead
OrganismBatrachochytrium dendrobatidis (strain JAM81 / FGSC 10211) (Frog chytrid fungus)
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Chytridiomycota> Chytridiomycota incertae sedis> Chytridiomycetes> Rhizophydiales> Rhizophydiales incertae sedis> Batrachochytrium.
Aromaticity0.08
Grand average of hydropathy-0.554
Instability index50.85
Isoelectric point5.78
Molecular weight33352.17
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:RU364143

GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coactivator activity	GO:0003713	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27070
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.13|      39|      77|     149|     191|       1
---------------------------------------------------------------------------
  149-  191 (62.80/47.94)	TWS.NEPdlfeQLQTSLEKKQQLRSNATISDTACSSDMDMDVSK
  228-  267 (66.33/41.08)	TWSaNAP....PVSTSMDNKPETISRIHTRHTNDSPLATMEIKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.94|      18|      51|      74|      92|       2
---------------------------------------------------------------------------
   74-   92 (29.46/28.39)	YFTPQpSLYVIRKQTRLSP
  127-  144 (34.48/26.44)	YFTKD.ALHVARESYRYNP
---------------------------------------------------------------------------




































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 MDP27070 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) TETWSANAPPVSTSMDNKPETISRIHTRHTNDSPLATMEIKKEHSSPGIAKVASQQSKTSSGKRMSIQ
226
293










Molecular Recognition Features






MoRF SequenceStartStop




1) IAKVASQQSKT
2) SGKRMSIQ
274
286
284
293