<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 MDP14358

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPTSPSLQNNPPPKFPSSSSQLPPPHHHQQQQHPPNPSAATSSALLPLLPPLRRAQSLLLQMASLSSKLFEVSPNRSLWHSTVRGSLPTFLSSLTQSMPPPPLESNPSSTKEILSLFTSLQTQLFEAVAELQEILDLQDAKQRIARDIKSKDTALLNFANKLKEAEGVLDVLVDDYSDYRRPKRAKSKSSEDDDVSNTTVASQLDLSDILSFSHRISYTTFAPPDFGAGQAPLRGALPPAPQEEQMRASQLYAFADLDVGLPKKVETKEKTIEAIIEPPPPPQPAETNPPANLATFQGLLPPNFTIPPGWKPGMPVVLPTDLPPPPPGWKPGDPLPPLESLPIPRMVEQQLQPVAPQGLHKPPETIQVRHVQIDIVDQDDDSSDYSSDDGSSDDED
Length412
PositionMiddle
OrganismManihot esculenta (Cassava) (Jatropha manihot)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Malpighiales> Euphorbiaceae> Crotonoideae> Manihoteae> Manihot.
Aromaticity0.05
Grand average of hydropathy-0.542
Instability index73.24
Isoelectric point4.98
Molecular weight44985.15
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
core mediator complex	GO:0070847	IBA:GO_Central
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

>MDP14358
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.52|      16|      16|     316|     331|       1
---------------------------------------------------------------------------
  316-  331 (32.72/ 9.05)	LPPNF.TIPPGWKPGMP
  334-  350 (29.80/ 7.63)	LPTDLpPPPPGWKPGDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.29|      18|      37|       3|      29|       3
---------------------------------------------------------------------------
   19-   50 (22.74/13.36)	TSPSLQNNPPPkfpssssqlppphHhQQQQH..P
  287-  306 (28.55/ 7.84)	TIEAIIEPPPP.............P.QPAETnpP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.76|      17|     212|     190|     210|       5
---------------------------------------------------------------------------
  190-  210 (26.52/23.02)	DDYSDYrrpkRAKSKSSEDDD
  396-  412 (32.24/17.24)	DDSSDY....SSDDGSSDDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.21|      17|      21|     238|     254|       6
---------------------------------------------------------------------------
  238-  254 (33.20/20.75)	APPD..FGAGQ....APLRGALP
  256-  278 (21.01/10.25)	APQEeqMRASQlyafADLDVGLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.63|      11|      23|     352|     364|       9
---------------------------------------------------------------------------
  352-  364 (12.40/11.05)	PPlESLPIpRMVE
  378-  388 (21.24/ 8.24)	PP.ETIQV.RHVQ
---------------------------------------------------------------------------




































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 MDP14358 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ETKEKTIEAIIEPPPPPQPAETNPPANLATFQGLLPP
2) PPGWKPGMPVVLPTDLPPPPPGWKPGDPLPPLESLPIPRMVEQQLQPVAPQGLHKPPETIQVRHVQIDIVDQDDDSSDYSSDDGSSDDED
3) QIVQSPARLGLTNPTSPSLQNNPPPKFPSSSSQLPPPHHHQQQQHPPNPSAATSSALLP
282
323
5
318
412
63










Molecular Recognition Features






MoRF SequenceStartStop




1) ETIQVRHVQIDIV
380
392