<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 MDP15840

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNVPHQLLQSPARLGLPTPSSPSLQNPNPAPKFSSQVSQPHQQSNILTTPTTSSTLLPLLPPLSRALSLLIQMASLASRLFEVSPNRSHWLSAFRGSLPSFLPPAAPVPQDSCPSSSKEILSVFTSLQTQLFEAVAELQEILDLQDEKQKVTREVRSKDSSILAFANKLKETECVLDMLVDDYSTYCRPKRTKLENDTEESSATTLASRLKLSDILSYAHRISYTTFAPPEFGAGLASLRGALPPAPQDEQMRASQLYNFADLDVGLPKADEAKKIVEPLIEPLAETNPLANLSAIQGLVPPNIVVPSGWKPGMPVELPTDLPLPPPGWKPGDPIALPPMDSLSLPPKAEEAPGRPVPPAGLPRMPEPIQVRHVQLDIEDDSSDYSSDDASSDSED
Length398
PositionMiddle
OrganismCapsicum baccatum (Peruvian pepper)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Solanoideae> Capsiceae> Capsicum.
Aromaticity0.05
Grand average of hydropathy-0.322
Instability index77.21
Isoelectric point4.80
Molecular weight43139.48
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
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

>MDP15840
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      97.94|      18|      18|     311|     328|       1
---------------------------------------------------------------------------
  311-  328 (40.84/20.32)	GWKPGMPVELP..TDLP.LPP
  330-  349 (33.40/15.14)	GWKPGDPIALPpmDSLS.LPP
  352-  368 (23.70/ 8.41)	EEAPGRPVP.P..AGLPrMP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.19|      26|      33|       6|      31|       2
---------------------------------------------------------------------------
    6-   31 (51.23/25.19)	PHQLLQ.SPAR...LGLPTPSSPSLQNP.NP
   42-   64 (40.74/18.37)	PHQ..Q.SNI....LTTPTTSSTLLPLL.PP
   79-  109 (30.22/11.52)	ASRLFEvSPNRshwLSAFRGSLPSFLPPaAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.76|      25|      51|     148|     174|       3
---------------------------------------------------------------------------
  148-  172 (39.77/31.87)	DEKQKVTREVRSK......DSSILAFANKLK
  183-  213 (35.99/21.02)	DDYSTYCRPKRTKlendteESSATTLASRLK
---------------------------------------------------------------------------




































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 MDP15840 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LLQSPARLGLPTPSSPSLQNPNPAPKFSSQVSQPHQQSNILTTPT
2) PVELPTDLPLPPPGWKPGDPIALPPMDSLSLPPKAEEAPGRPVPPAGLPRMPEPIQVRHVQLDIEDDSSDYSSDDASSDSED
9
317
53
398










Molecular Recognition Features






MoRF SequenceStartStop




1) PPAGLPRMPEPIQVRHVQLDIEDDSSDYS
360
388