<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 MDP11535

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMASLASKLFEVSPNRAVWVSTFRGSFPSFLSSQIQSMPPPPLESTPTTTKEVLSLFTSLQTQLFEAVAQLQEILDLQDAKQKVAREIRSKDSAILGFANKLKEAERVLDILVDDYSDYRRPKRLKLEEEGGEGDDDSCTTTVASQLDLSDILSYAHRISYTTFAPPEFGAGTAPLRGAMPPAPQEEQMRASQLYNFADLDVGLPKTVETKEKAVEAIIEPPPPQPEANPLANLASLLPPNFSIPSGWKPGMPVELPKDLPVPPPGWKPGDPVPLPPLDSLPIPRMEEPHLRPVPPPGLHKPNEPIQVRHVELDILDPDDDSSDYSSDSGSSDDED
Length335
PositionMiddle
OrganismCorchorus olitorius
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Grewioideae> Apeibeae> Corchorus.
Aromaticity0.06
Grand average of hydropathy-0.480
Instability index68.72
Isoelectric point4.53
Molecular weight36681.89
Publications









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

>MDP11535
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.27|      20|      31|     249|     272|       1
---------------------------------------------------------------------------
  251-  272 (39.21/15.55)	MpvELPKDLPVPPPG.WKPGDPV
  285-  305 (37.06/ 9.56)	M..EEPHLRPVPPPGlHKPNEPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.02|      11|      54|     165|     175|       3
---------------------------------------------------------------------------
  165-  175 (22.13/ 7.11)	PPEFGAGTAPL
  220-  230 (22.89/ 7.58)	PPPPQPEANPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.66|      21|     203|     108|     136|       5
---------------------------------------------------------------------------
  108-  136 (33.34/34.18)	LDIL..VDDYSDYrrpkrlklEEEGGEGDDD
  312-  334 (34.32/18.86)	LDILdpDDDSSDY........SSDSGSSDDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.45|      29|     139|      37|      67|       6
---------------------------------------------------------------------------
   37-   67 (46.70/31.52)	MPPPPLESTPTTTKevLSLFTSLQTQLFEAV
  179-  207 (52.75/30.18)	MPPAPQEEQMRASQ..LYNFADLDVGLPKTV
---------------------------------------------------------------------------




































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 MDP11535 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SGWKPGMPVELPKDLPVPPPGWKPGDPVPLPPLDSLPIPRMEEPHLRPVPPPGLHKPNEPIQVRHVELDILDPDDDSSDYSSDSGSSDDED
245
335










Molecular Recognition Features






MoRF SequenceStartStop




1) PGLHKPNEPIQVRHVELDILDP
296
317