<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 MDP21236

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQPQIVQSPARLGLTNPTSPSLQNPTPPKLPSQQPSLSPTLLSLLAPLPRAQSLLIQMASLASKLFEVSPNRSLWLNAFRGSFPTFLSSQSQSLPSTAPDSSPSSTKEILSQFTALQTQLFEAVAELQEILDLQDAKLKIAREVRSKDAALLSFSKKLKDVEQVLDNLVDDYSDFSRPKRTKQEDGAEDDSSCTTTTVASQLNLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFANLDVGLPKTVEREEETIHTILEPPHPDPTEANQLPKLGALQGLLPPNITVPSGWIPGMPVELPVELPSDVPVPPPGWKPGDPVPLPPLGSAPAPRVEEQQLRPNAHQPLHRAPATIQVQHVQLDIPDQDDDSSDYTSDDASSEDED
Length400
PositionMiddle
OrganismPrunus yedoensis var. nudiflora
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Rosaceae> Amygdaloideae> Amygdaleae> Prunus.
Aromaticity0.05
Grand average of hydropathy-0.452
Instability index75.29
Isoelectric point4.60
Molecular weight43450.23
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

>MDP21236
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.47|      20|      20|     298|     317|       1
---------------------------------------------------------------------------
  298-  317 (42.92/18.92)	LPPNITV.PSGWIPGMPVELP
  320-  340 (38.55/16.29)	LPSDVPVpPPGWKPGDPVPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.46|      15|      19|     341|     355|       3
---------------------------------------------------------------------------
  341-  355 (28.12/16.50)	PLGSAPAP.RVEEQQL
  362-  377 (24.35/13.26)	PLHRAPATiQVQHVQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.64|      17|      18|      67|      83|       4
---------------------------------------------------------------------------
   67-   83 (31.40/18.12)	FEVSPNRSLWLNAFRGS
   87-  103 (29.24/16.35)	FLSSQSQSLPSTAPDSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      76.56|      18|      18|     155|     172|       5
---------------------------------------------------------------------------
  155-  172 (29.70/20.85)	FSKKLKDVEQVLDNLVDD
  176-  191 (26.92/18.22)	FSRP.KRTKQ.EDGAEDD
  192-  207 (19.94/11.62)	SSCTTTTVASQL.NLSD.
---------------------------------------------------------------------------




































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 MDP21236 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PKTVEREEETIHTILEPPHPDPTEANQLPKLGALQG
2) VQSPARLGLTNPTSPSLQNPTPPKLPSQQPS
3) WIPGMPVELPVELPSDVPVPPPGWKPGDPVPLPPLGSAPAPRVEEQQLRPNAHQPLHRAPATIQVQHVQLDIPDQDDDSSDYTSDDASSEDED
261
7
308
296
37
400










Molecular Recognition Features






MoRF SequenceStartStop




1) AHQPLHRAPATIQVQHVQLDIP
2) DYTSDDASSEDED
359
388
380
400