<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 MDP11763

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSIQNPTPPKLPPSQQSHHQNQSNVSSSTPSSTLLPLLPPLPRAQALLLQMASLASKLFEVSPNRSLWLTAFRGSLPTFLTSQTQSSPSTFLDSTPSSSKEILSLFNVLQTQLFEAVAELQEILDLQDSKQKIAYEIRAKDAALRAFANKLKDAEQVLDVLFDDYADYQRPRRVKTEGGAENESLCSTTVASQLRLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFANLDVGLPKAVESTEKTIEPMIEPPAPVRVDANPLSNMAAIQGLLPPNITVPSGWKPGMPVELPGDLPMPPPGWKPGDPVRLPPMDSLPVTRVDEPQLRPNALPGLHKPPEPIQVRHVQLDILDQDDDSSDYTSDEGSSEDDD
Length407
PositionMiddle
OrganismCucumis melo (Muskmelon)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Cucurbitales> Cucurbitaceae> Benincaseae> Cucumis.
Aromaticity0.05
Grand average of hydropathy-0.437
Instability index72.86
Isoelectric point4.83
Molecular weight44423.59
Publications
PubMed=22753475

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:EnsemblPlants
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

>MDP11763
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     157.75|      36|      37|     309|     345|       1
---------------------------------------------------------------------------
  281-  313 (54.87/21.10)	TIEPMI..EPPA.PVRVDAN.PLSNMAAIQG...LLPPNI
  314-  350 (70.16/32.38)	TVPSGW..KPGM.PVELPGDLPMPPPGWKPGDpVRLPPMD
  351-  380 (32.72/ 9.90)	SLPVTRvdEPQLrPNALPG.LHKPP...EPIQ.VR.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.37|      25|      63|      18|      52|       2
---------------------------------------------------------------------------
   18-   42 (46.19/15.34)	PNSPSIQNPTPPKLPPSQQSHHQNQ
   83-  107 (40.43/18.13)	PNRSLWLTAFRGSLPTFLTSQTQSS
  234-  258 (42.75/13.26)	PEFGAGQAPLRGALPPAPQDEQMRA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.81|      20|      65|      48|      70|       3
---------------------------------------------------------------------------
   48-   70 (30.49/19.84)	STPSST..LLPLLPPLpraQALLLQ
  114-  135 (30.32/12.61)	STPSSSkeILSLFNVL...QTQLFE
---------------------------------------------------------------------------




































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 MDP11763 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ITVPSGWKPGMPVELPGDLPMPPPGWKPGDPVRLPPMDSLPVTRVDEPQLRPNALPGLHKPPEPIQVRHVQLDILDQDDDSSDYTSDEGSSEDDD
2) VQSPARLGLTNPNSPSIQNPTPPKLPPSQQSHHQNQSNVSSSTPSSTLLP
313
7
407
56










Molecular Recognition Features






MoRF SequenceStartStop




1) PIQVRHVQLDILDQ
376
389