<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 MDP10489

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMTNPFSAPKMLPGRIQPPQDVEKMTETNWSNFMQIPQNAINRDNVLTYFCDPKNPFYDNQSDNEQLRMQRQSIMPNGIVFIEEMLPQLNRMNGIQYVVHEGQAPLFVIRKQRRTSAAQYQPIAFYYVLNGIVYQAPSIYHITQSRIVGAMEPLKRAFTETLSYLRFNVNKGYYWEFKDGQKRPGSKEGGPQEIPQNEPPNALKKEDEPWTTRATPYQHNRTEMLLAYLREEFSGEKPKPSGTRPNSAAATPSIGAATPQNSEATFLAPTAPGQASSAAHSIPSAHANIGLDLPGVLPMSNSAAAHFIAAATSKNDQKMEQMDTS
Length324
PositionHead
OrganismBursaphelenchus xylophilus (Pinewood nematode worm) (Aphelenchoides xylophilus)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Tylenchina> Tylenchomorpha> Aphelenchoidea> Aphelenchoididae> Bursaphelenchus.
Aromaticity0.09
Grand average of hydropathy-0.652
Instability index51.55
Isoelectric point7.80
Molecular weight36281.50
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
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

>MDP10489
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.75|      20|      52|     241|     260|       1
---------------------------------------------------------------------------
  198-  218 (29.76/12.76)	PPNA..LKKEDEPWTTRATPyQH
  241-  260 (37.85/17.80)	GTRP..NSAAATPSIGAATP.QN
  294-  314 (26.14/10.51)	GVLPmsNSAAA.HFIAAATS.KN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.08|      21|      47|      35|      57|       3
---------------------------------------------------------------------------
   35-   57 (36.90/31.71)	IPQnaINRDNVLTYFC.DPKNPFY
   85-  106 (34.18/22.30)	LPQ..LNRMNGIQYVVhEGQAPLF
---------------------------------------------------------------------------




































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 MDP10489 with Med6 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GQKRPGSKEGGPQEIPQNEPPNALKKEDEPWTTRATPY
2) YLREEFSGEKPKPSGTRPNSAAATPSIGAATPQNSEATFLAPTAPGQASSAAHSIPSAHANIGLDLPGV
179
227
216
295










Molecular Recognition Features






MoRF SequenceStartStop




1) AYLREEF
2) YYWEFK
226
172
232
177