<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 MDP28929

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMASVDFRDNLLGISWVDSSWVPILNPGNVLDYFSERSNPFYERSCNNEVVKMQRLSLEHLNQMVGVEYILLHAQEPILYIIRKQQRQSPTQVVPLADFYIIAGVVYQAPDLGTVISSRTLSAVHGIQSAFDEAMSYCRYHPSKGYWWQFKDQEEKEKAKPKSKKKEELSSLFQRHRVDTLLMDLRSKFPPTFYQPKPGDKPIPVEVKKEPEAPAETVKQEERESAAKTSAPTPSSKPPPEKRARLQ
Length246
PositionHead
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.09
Grand average of hydropathy-0.640
Instability index55.04
Isoelectric point8.68
Molecular weight28235.87
Publications
PubMed=17554307

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	PIRNR:PIRNR023869
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

>MDP28929
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.73|      31|      51|     139|     170|       1
---------------------------------------------------------------------------
  139-  170 (50.56/31.74)	YHPSKGYwWQFKDQEEKEKAKP.KSKKKEELSS
  193-  224 (50.17/26.23)	YQPKPGD.KPIPVEVKKEPEAPaETVKQEERES
---------------------------------------------------------------------------




































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 MDP28929 with Med6 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PTFYQPKPGDKPIPVEVKKEPEAPAETVKQEERESAAKTSAPTPSSKPPPEKRARLQ
190
246










Molecular Recognition Features






MoRF SequenceStartStop




1) IPVEVKKEPEAPAETVKQEERESAAKTS
2) SSKPPPEKRARLQ
3) YWWQFK
202
234
145
229
246
150