<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 MDP15900

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLIGSFIYSLYEPFYLLNGLTYIFGFWKSFLLFRTYHKLMSVSLSPCVSLHLLVECNKRICSFCSLLVCVSLLRLFIDISFLPFLIFHPRVVKMLQNVPHQLLQSPARLGLPTPSSPSLQNPNPAPKFSSQVSQPHQQANILTTPTTSSTLLPLLPPLSRAQSLLIQMASLASRLFEVSPNRSHWLSAFRGSLPSFLPPAAPVPQDSCPSSSKEILSVFTSLQTQLFEAVAELQEILDLQDEKQKVTREVRSKDSSILAFANKLKETECVLDMLVDDYSTYCRPKRTKLENDTEESSATTVASRLKLSDILSYAHRISYTTFAPPEFGAGLASLRGALPPAPQDEQMRASQLYNFADLDVGLPKADEAKKIVEPLIEPLAETNPLANLSAIPGLVPPNIVVPSGWKPGMPVELPTDLPLPPPGWKPGDPIALPPMDSLSLPPKAEEAPGRPVPPAGLPRMPEPIQVRHVQLDIEDDSSDYSSDDASSDSED
Length491
PositionMiddle
OrganismCapsicum annuum (Capsicum pepper)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Solanoideae> Capsiceae> Capsicum.
Aromaticity0.07
Grand average of hydropathy-0.074
Instability index70.91
Isoelectric point5.32
Molecular weight53998.56
Publications
PubMed=29089032

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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP15900
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.81|      18|      20|     402|     421|       1
---------------------------------------------------------------------------
  404-  421 (39.64/15.97)	GWKPGMPVELP..TDLPLPP
  423-  442 (31.17/ 7.10)	GWKPGDPIALPpmDSLSLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     137.04|      32|      33|      99|     130|       2
---------------------------------------------------------------------------
   99-  130 (61.05/28.79)	PHQLLQ.SPAR...LGLPTPSSPSLQNP.NPAPKFSS
  135-  163 (48.05/20.97)	PHQ..Q.ANI....LTTPTTSSTLLPLL.PPLSRAQS
  172-  204 (27.94/ 8.87)	ASRLFEvSPNRshwLSAFRGSLPSFLPPaAPVP....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.64|      19|      20|      37|      55|       3
---------------------------------------------------------------------------
   37-   55 (33.95/22.82)	HKLMS.VSLSPCVS.LHLLVE
   58-   78 (25.69/15.41)	KRICSfCSLLVCVSlLRLFID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.73|      25|      51|     241|     267|       4
---------------------------------------------------------------------------
  241-  265 (39.73/29.57)	DEKQKVTREVRSK......DSSILAFANKLK
  276-  306 (35.99/19.51)	DDYSTYCRPKRTKlendteESSATTVASRLK
---------------------------------------------------------------------------




































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 MDP15900 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PVELPTDLPLPPPGWKPGDPIALPPMDSLSLPPKAEEAPGRPVPPAGLPRMPEPIQVRHVQLDIEDDSSDYSSDDASSDSED
410
491










Molecular Recognition Features






MoRF SequenceStartStop




1) PPAGLPRMPEPIQVRHVQLDIEDDSSDY
453
480