<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 MDP05316

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMISHFTCLYFQFSGPIVFRAVFHIVEVTVFNLLTGYMGVPNVVSQPGSTYQQTISLFHQSFKNPNWPPNFITPENVLDYFCDPGNVFYDVSSCNQHIRMQNLNRPLHECLQSMQGIQYTVVGAFPPLYVIMKQRRNSPTNVTPLAYYYIVNGTIYQCPDVYTYVQSKLIGVIDPLRQALDQARQFSRFNISKGYYWEFRDSDSETPKKTSEVEEKPQLARSTFYQRTRTDAMLRELFAKFPPPNSIQFNFGENEMSNENDPVTATSAVVEKTGQNSSVNNQDVTTTESSSSGVNQKPAFTSPSSVPVTSAHRGAGASSSSSLNFSGPSPVLQSPSKNTH
Length339
PositionHead
OrganismThelazia callipaeda (Oriental eyeworm) (Parasitic nematode)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Spiruromorpha> Thelazioidea> Thelaziidae> Thelazia.
Aromaticity0.12
Grand average of hydropathy-0.410
Instability index53.23
Isoelectric point7.04
Molecular weight38052.16
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

>MDP05316
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     175.19|      51|      67|      61|     114|       1
---------------------------------------------------------------------------
   61-  114 (94.21/58.39)	FKNPNWPPNFITPenvLDYFCDPGNVFYDVSSCNQHI..RMQNLNRPLHECL.QSMQ
  131-  184 (80.98/43.85)	MKQRRNSPTNVTP...LAYYYIVNGTIYQCPDVYTYVqsKLIGVIDPLRQALdQARQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.77|      24|      26|     283|     306|       2
---------------------------------------------------------------------------
  262-  282 (31.55/15.32)	VTAT........SAVVEKTGQNSSVNNQ...D
  283-  306 (42.90/23.27)	VTTTE.....SSSSGVNQKPAFTSPSSV...P
  307-  334 (25.32/10.96)	VTSAHrgagaSSSSSLN....FSGPSPVlqsP
---------------------------------------------------------------------------




































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 MDP05316 with Med6 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) QFNFGENEMSNENDPVTATSAVVEKTGQNSSVNNQDVTTTESSSSGVNQKPAFTSPSSVPVTSAHRGAGASSSSSLNFSGPSPVLQSPSKNTH
247
339










Molecular Recognition Features






MoRF SequenceStartStop




1) KGYYWEFRD
192
200