<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 MDP29188

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAAGDFRDNLLGISWVDSSLVPILNPGNVLDYFSERSNPFYDRTCNNEVVKMQRLTLEHLNQMVGVEYILLHAQEPILYIIRKQQRQSPAQVIPLSDYYIIAGVVYQAPDLGTVISSRVLSAVHGIQSAFDEAMSYCRYHPSKGYWWHFKDQEEREKNKPKTKKKEEPSSLFQRHRVDTLLVDLRSKFPPTFYQPKPGEKPIPAVEVKKEPEAPTEAVKQEEREPGAKSSAPAPPSKQPPEKRARLQ
Length247
PositionHead
OrganismTetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Tetraodon.
Aromaticity0.09
Grand average of hydropathy-0.663
Instability index59.74
Isoelectric point8.68
Molecular weight28256.87
Publications
PubMed=15496914

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
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

>MDP29188
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.74|      39|      41|     160|     200|       1
---------------------------------------------------------------------------
  160-  200 (60.41/38.10)	PKTKKKEEPSSLFQRHRVDTLLVDLRSKFP.PTFYQPkPgEK
  203-  242 (63.33/32.59)	PAVEVKKEPEAPTEAVKQEEREPGAKSSAPaPPSKQP.P.EK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.02|      11|      17|      79|      89|       2
---------------------------------------------------------------------------
   79-   89 (20.77/14.99)	YIIRKQQRQSP
   99-  109 (20.25/14.45)	YIIAGVVYQAP
---------------------------------------------------------------------------




































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 MDP29188 with Med6 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FYQPKPGEKPIPAVEVKKEPEAPTEAVKQEEREPGAKSSAPAPPSKQPPEKRARLQ
192
247










Molecular Recognition Features






MoRF SequenceStartStop




1) IPAVEVKKEPEAPTEAVKQEEREPGAKSSAPAPPSKQPPEKRARLQ
202
247