<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 MDP33074

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTGPGSPSVQNPTPPRHGHPTSSSSSQSQHQQIQQPSNLQPSSSAAAAAASASATISSSALLSLLPPLPRAQALLQQMAVLTSKLFDVSPNRALWLSAFRGSLPSFLSSHSLPPPPPLENPNPLSTKEILSQFNSLQTQLFEAVTELQEILDLQDAKQKVAREIKSKDSSLLAFANKLKEAERVLDMLVDDYSDYRKPKRGKTVTEEEEEEGNDNGSSSTSSSSVTTTVSSQLKLKDILAYAHKISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYAFADLDIGLPKTVETMEKKVEALMEPPLPPPETVNLSAIQNLLPPDIAVPSGWKPGMPVELPKDLPLPPPGWKPGDPVVLPPLESILAPRAQEQQQMRPPPPGLHRPPDVIQVRPVQLDIMESDSSSDYSSDDGSSDDED
Length435
PositionMiddle
OrganismEutrema salsugineum (Saltwater cress) (Sisymbrium salsugineum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Eutremeae> Eutrema.
Aromaticity0.04
Grand average of hydropathy-0.474
Instability index68.57
Isoelectric point4.93
Molecular weight46888.27
Publications
PubMed=23518688

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

>MDP33074
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     132.00|      32|      37|     309|     345|       1
---------------------------------------------------------------------------
  309-  341 (50.80/24.88)	ETmEKKVEALMEPPLP....PP.....ETVNLSAIQ.NLLPPD
  349-  384 (43.86/14.20)	KP.GMPVELPKDLPLP....PPgwkpgDPVVLPPLE.SILAP.
  385-  419 (37.33/ 8.67)	...RAQEQQQMRPPPPglhrPP.....DVIQVRPVQlDIMESD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     332.42|      89|     107|      18|     106|       2
---------------------------------------------------------------------------
   18-  102 (135.06/50.10)	........................PGSPSVQNPTPPRH...........GHPTSSSSSQSQHQQIQQPSNLQPSSSAAAAAASASATIS.......S..SALLSLLPPLPRAQALLQQMAVLTSKLFDV
  103-  209 (114.28/41.44)	SPNRalwlsafrgslpsflsshslPPPPPLENPNPLST...........KEILSQFNSL.QTQLFEAVTELQEILDLQDAKQKVAREIK.......SkdSSLLAFANKLKEAERVLD...MLVDDYSDY
  211-  295 (83.08/28.45)	KPKR..................................gktvteeeeeeGNDNGSSSTSSSSVTTTVSSQLKLKDILAYAHKISYTTFAppefgagQ..APLRGALPPAPQDE....QMR..ASQLY..
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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 MDP33074 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IVQSPARLGLTGPGSPSVQNPTPPRHGHPTSSSSSQSQHQQIQQPSNLQPSSSAAAAAA
2) RKPKRGKTVTEEEEEEGNDNGSSSTSSSSVTT
3) VPSGWKPGMPVELPKDLPLPPPGWKPGDPVVLPPLESILAPRAQEQQQMRPPPPGLHRPPDVIQVRPVQLDIMESDSSSDYSSDDGSSDDED
6
210
344
64
241
435










Molecular Recognition Features






MoRF SequenceStartStop




1) PPGLHRPPDVIQVRPVQLDIMESDS
396
420