<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 MDP17857

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMSMLSMGSAGHGELQSMWGPARSQQQQHDQAVPMDTAATARPAVVRSALMNQPPQRRAHMLLQEMAGLANRLVELAATKSWQPGHMKVSIPPFLAGAILPPEGQAAVTSKEVQALLENHQNLLYEAVSELQELQDIEQEKQQIAEEINTKDVVVRAFAKRVRDAHQVLEDALEEYADLKKGKHRKSVPVAELVSYAHRISYTTFAPPDYGAGETILRGALPPAPQEENMRASQLYHVQVSDLGFTSAFAPPPAPEALEEAEPPKAEPIMPAGWRPGMPVQLPPMAELPPMPAGWKIGDPIPLPPLPGMPMEGLPPRVPVPVTMVVPHVNLDLNPELEDDLSSDYGSASESDEDED
Length355
PositionMiddle
OrganismPhyscomitrella patens subsp. patens (Moss)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Bryophyta> Bryophytina> Bryopsida> Funariidae> Funariales> Funariaceae> Physcomitrium.
Aromaticity0.05
Grand average of hydropathy-0.390
Instability index66.51
Isoelectric point4.81
Molecular weight38670.56
Publications
PubMed=18079367
PubMed=29237241

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
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP17857
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     115.05|      26|      29|     262|     288|       1
---------------------------------------------------------------------------
  262-  285 (41.38/22.33)	.......PPKAePI.MPAGWRPGMPVQLPPMA
  286-  306 (36.32/15.43)	ELP...........pMPAGWKIGDPIPLPPLP
  307-  336 (37.35/16.08)	GMPmeglPPRV.PV.PVTMVVPHVNLDLNPEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.72|      22|      43|     195|     219|       2
---------------------------------------------------------------------------
  195-  219 (33.56/31.07)	YAHRIS...YTT.FAPPDygAGETiLRGA
  235-  260 (33.15/18.40)	YHVQVSdlgFTSaFAPPP..APEA.LEEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.38|      32|      46|     110|     145|       3
---------------------------------------------------------------------------
  110-  145 (42.63/37.01)	KEVQallENHQnLLYEAVSELQELQDIEQEKQ.QIAE
  159-  191 (48.74/29.68)	KRVR...DAHQ.VLEDALEEYADLKKGKHRKSvPVAE
---------------------------------------------------------------------------




































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 MDP17857 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AFAPPPAPEALEEAEPPKAEPIMPAGWRPGMPVQLPPMAELPPMPAGWKIGDPIPLPPLPGMPMEGLPPRVPVPVTMVVPHVNLDLNPELEDDLSSDYGSASESDEDED
2) HGELQSMWGPARSQQQQHDQAVPMDTAATA
247
11
355
40










Molecular Recognition Features






MoRF SequenceStartStop




NANANA