<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 MDP00243

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMADRFSLKECLQESTEDLEATIKMIIAFVLDKDRSCGSLTSLCESFRKKHAELTKLLAKVPAYQQREREIRRLEAEVEARDKVLGDLQKQLMAAEKLITKMVFQADKKVKEMRQSEANRVNSETIIRFANQISRTYAVAAPLGWQLGDTSRPYPTEAELRLSALAAPRVIVQAAPPALSLLRQPTASTSGILRGSGRGASPMTSFSTAMQQQQRSWSPRSTFVQQSSSPRGRNAAGRGNIISPRINAAPGASLLQRRPSMTGSSPHLSSPSSSYQGSIREGLPPPVTNVEQMSSDSSTHMSDAGKTDTAFLNSNNASTTCNVQIHPFSQGLSSTNAREHDFPDLTDFVNQRMENELDKLFISRYTMANKLYVEVANGFPDPVIVYPWNKRPKRNFDYISGHRRSWKGDNRCSVGSRWRSNWGNSSYDPYVAQESRKRHNPAMDHVRVSYPGRTNP
Length455
PositionMiddle
OrganismOnchocerca volvulus
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Spiruromorpha> Filarioidea> Onchocercidae> Onchocerca.
Aromaticity0.07
Grand average of hydropathy-0.654
Instability index59.88
Isoelectric point9.80
Molecular weight50772.63
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
mRNA cap binding complex	GO:0005845	IEA:InterPro

GO - Biological Function
RNA binding	GO:0003723	IEA:InterPro
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro
RNA 5'-cap (guanine-N7)-methylation	GO:0106005	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP00243
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     127.90|      31|      39|     176|     214|       1
---------------------------------------------------------------------------
  176-  206 (53.62/21.13)	PALSLLRQPT........ASTSGILRGSGR.G..ASPMTSFS
  218-  248 (45.09/25.95)	PRSTFVQQ.S........SSPRG.RNAAGR.GniISPRINAA
  250-  284 (29.20/ 6.58)	GASLLQRRPSmtgssphlSSPSSSYQGSIReG..LPP.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.87|      25|      34|     288|     312|       2
---------------------------------------------------------------------------
  288-  312 (44.45/29.00)	NVE..QMSSD.SSTHMSDAGKTD.TAFLN
  321-  349 (33.41/20.04)	NVQihPFSQGlSSTNAREHDFPDlTDFVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.40|      29|      46|     376|     407|       3
---------------------------------------------------------------------------
  376-  407 (53.03/48.87)	NGFPDPVIVYPWNKRPKRNFDYIsghRRSWKG
  423-  451 (54.37/39.86)	NSSYDPYVAQESRKRHNPAMDHV...RVSYPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.85|      21|      39|      55|      76|       4
---------------------------------------------------------------------------
   55-   76 (29.50/22.85)	KLLAKVpAYQ..QREREIRRLEAE
   96-  118 (30.35/17.99)	KLITKM.VFQadKKVKEMRQSEAN
---------------------------------------------------------------------------




































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 MDP00243 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RQPTASTSGILRGSGRGASPMTSFSTAMQQQQRSWSPRSTFVQQSSSPRGRNAAGRGNIISPRINAAPGASLLQRRPSMTGSSPHLSSPSSSYQGSIREGLPPPVTNVEQMSSDSSTHMSDAGKTDTAFLNSNN
182
315










Molecular Recognition Features






MoRF SequenceStartStop




NANANA