<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 MDP05711

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMCAGVPTKQKLFSQLEDLDYLLKELLDKVNRRSRYDDIEHTIFSLLDKDKELKATLQTVSEQMEVQLKIEKLRADCENSDAQINACQHHLKKCELLLCTALFYSRQKLDSMVKAVKNPTDIDELIKYAHRISCTYGAVAPDNWTPSDPRRPYPNKEEIRRGYLGHLDDSGKFLPTLKDAVAQFQPNINTPAASSIEVSLSQQQMSLTSSTQLPNPTSVSSESLENSSVYSPSVGMSGINITPSPGGMVPSNGSGSGWIEPRHPTSSLNAILSGGGSSGNSNRPSGYPSESPSPNMWHQQQQLRQTLPGVHSSTPPQQQIKQPHPDDMRTYSDNSDDDGGLGF
Length342
PositionMiddle
OrganismHymenolepis diminuta (Rat tapeworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Cyclophyllidea> Hymenolepididae> Hymenolepis.
Aromaticity0.06
Grand average of hydropathy-0.688
Instability index65.32
Isoelectric point5.73
Molecular weight37701.66
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:RU364141

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

>MDP05711
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.12|      18|      60|     244|     263|       2
---------------------------------------------------------------------------
  244-  263 (32.48/22.59)	PGgmVPSNGSGSGWIEPRHP
  307-  324 (36.64/19.02)	PG..VHSSTPPQQQIKQPHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.25|      16|      18|      13|      28|       3
---------------------------------------------------------------------------
   13-   28 (26.15/18.48)	SQLEDLDYLLKELLDK
   33-   48 (28.10/20.35)	SRYDDIEHTIFSLLDK
---------------------------------------------------------------------------




































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 MDP05711 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AASSIEVSLSQQQMSLTSSTQLPNPTSVSSESLENSSVYSPSVGMSGINITPSPGGMVPSNGSGSGWIEPRHPTSSLNAILSGGGSSGNSNRPSGYPSESPSPNMWHQQQQLRQTLPGVHSSTPPQQQIKQPHPDDMRTYSDNSDDDGGLGF
191
342










Molecular Recognition Features






MoRF SequenceStartStop




1) IRRGYL
2) QIKQPHPDDMRT
158
318
163
329