<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 MDP31306

Description Mediator of RNA polymerase II transcription subunit 19-B
SequenceMTEIFSSLYGQPDSQGPAGPSALGFGSGKPQVPQNMGPMCFPHQMMEEGAPVRKPAAMNEPFYLLRELPMENELTGHTNLITHYNLEHAYNKFCGKKVKEKLSNFLPELPGMIDSPGIQDNSSLRSLIEKPPVCNNSFSPLTGAMLTGFRLHTGPLPEQYRLMHIQPPKKKNKHKHKHHRPQDPLPPETPSDSDHKKKKKKKDDDPDRKKKKKDKKKKKNRHSPDHPGMTGAQPSTSSLR
Length240
PositionHead
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.05
Grand average of hydropathy-1.105
Instability index57.23
Isoelectric point9.67
Molecular weight27004.74
Publications
PubMed=15256591

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 (By similarity). 
ECO:0000250
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro
transcription factor binding	GO:0008134	IBA:GO_Central
GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP31306
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.62|      14|      18|     167|     183|       1
---------------------------------------------------------------------------
  167-  180 (29.10/ 8.46)	PPKKKNK..HKHKHHR
  186-  201 (18.52/ 6.14)	PPETPSDsdHKKKKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.22|      27|     114|      96|     125|       2
---------------------------------------------------------------------------
   96-  125 (45.47/28.83)	KKVKEKLSN.FLPELPGMidsPGIQ.DNSSLR
  212-  240 (42.75/20.53)	KKDKKKKKNrHSPDHPGM...TGAQpSTSSLR
---------------------------------------------------------------------------




































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 MDP31306 with Med19 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AMLTGFRLHTGPLPEQYRLMHIQPPKKKNKHKHKHHRPQDPLPPETPSDSDHKKKKKKKDDDPDRKKKKKDKKKKKNRHSPDHPGMTGAQPSTSSLR
2) FLPELPGMIDSPGIQDNSSLRSLIEKPPVCNNS
144
105
240
137










Molecular Recognition Features






MoRF SequenceStartStop




1) KKKNKHKHKHHR
2) SDSDHKKKKKKKDDDPDRKKKKKDKKKKKNRHSPDHPGMT
3) YRLMHIQP
169
191
160
180
230
167