<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 MDP05102

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMADNCSLKELLQESTEDLEATIKMIVAFVLDRDRSCGSLTSLCESFRKKHAELAKLLAKVPAHQEREREIRRLEAEVEARDRILGDLQNQLMAAEKLVTKMVFQADKKVKEMRQSEANRVNSETIIRFANQISRTYAVAAPLGWQLGDTSRPYPTEAELRLSALAAPRVIVQAAPPALSLLRQPAASTSGMLRGSGRGASPMTSYSAAMQQQQKSWSPRGTFVQQSSSSPRGRSAGGRGSIISPRIGAAPGAGLLQRRPSMTGSSPHLSSPSSSYQGPIRGGLPPPITNVEQMSSDSSSSSSSDEVHMGEPKRAVDKTVPSSDSNSGTCGTETLPSSKESNNTNKELSDFPDLTDFVNQRTENDLDELFSSRYTMANKLYVEVANGFPDPVIVSPWSKRPKRNFDYTGGQRRSWREDSGRNVNSEWRSGWRNPNYDPYVAHGSRKRRNADADHVRVSYPGRTNS
Length464
PositionMiddle
OrganismBrugia pahangi (Filarial nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Spiruromorpha> Filarioidea> Onchocercidae> Brugia.
Aromaticity0.06
Grand average of hydropathy-0.728
Instability index60.18
Isoelectric point9.47
Molecular weight51021.37
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

>MDP05102
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     168.66|      25|      25|     250|     274|       2
---------------------------------------------------------------------------
  175-  204 (31.18/12.57)	PPALSLLRQPaaSTSGmlrGSGRGA.SPMTS
  205-  229 (36.33/15.81)	YSAAMQQQQK..SWSP...RGTFVQ.QSSSS
  230-  247 (25.81/ 9.20)	P.......RG..RSAG...GRGSII.SPRIG
  250-  274 (44.33/20.84)	PGAGLLQRRP..SMTG...SSPHLS.SPSSS
  278-  301 (31.01/12.47)	PIRGGLP..P..PITN...VEQMSSdSSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.09|      40|      40|      51|      90|       3
---------------------------------------------------------------------------
    7-   42 (47.30/27.04)	..LKELLQE..STEDLE.ATIKMIVAFVLDRDRSCGSLTSL
   51-   90 (63.28/38.24)	AELAKLLAKVPAHQERE.REIRRLEAEVEARDRILGDLQNQ
   94-  131 (50.51/29.29)	AE..KLVTKMVFQADKKvKEMRQSEANRVNSETII.RFANQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.35|      10|      16|     133|     142|       4
---------------------------------------------------------------------------
  133-  142 (18.82/11.49)	SRTYAVAAPL
  150-  159 (18.52/11.20)	SRPYPTEAEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.37|      21|      36|     332|     352|       5
---------------------------------------------------------------------------
  332-  352 (37.04/24.44)	ETLPSSKES..NNTNKELSD.FPD
  366-  389 (28.32/17.10)	DELFSSRYTmaNKLYVEVANgFPD
---------------------------------------------------------------------------




































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 MDP05102 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RQPAASTSGMLRGSGRGASPMTSYSAAMQQQQKSWSPRGTFVQQSSSSPRGRSAGGRGSIISPRIGAAPGAGLLQRRPSMTGSSPHLSSPSSSYQGPIRGGLPPPITNVEQMSSDSSSSSSSDEVHMGEPKRAVDKTVPSSDSNSGTCGTETLPSSKESNNTNKELSDFPDLTDFVNQRTENDLDELF
182
369










Molecular Recognition Features






MoRF SequenceStartStop




1) YDPYVAH
435
441