<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 MDP14559

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNVPHQMIQSPARLGLPNPNSPSLQTSTPPKFPSQVPQSQPSNLHPNLLTTPTSLTLLPLLPPLSRAQSILLRMASLTTRLFEVSPNHTQWLSTFRGSFPTFLSTQNLSSTDSNPANSKEIISLFSTLQAQLFEAVTELQEILDLQDAKQKVTREIRSKDSAILAFANKLKEAERVLDILVDDYSDYRQAKRSKVDDSDESSSTTTVATRLNLTDILSYAHRISYTTFAPPEFGAGTAPLRGALPPAPQEEQMRASMLYSFADLDVGLPKSDNKDKFTIEPLVENQNDPNLLANMGIKDMLPPNIVVPSGWKPGMPVQLPTDLPILPPAGWKPGDPVALPPLESLSVPPRIEEQQPQPVHVPPFAKGPQPIQVRHVQLDIADDSSSEYTTDESSDDED
Length400
PositionMiddle
OrganismHelianthus annuus (Common sunflower)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> campanulids> Asterales> Asteraceae> Asteroideae> Heliantheae alliance> Heliantheae> Helianthus.
Aromaticity0.06
Grand average of hydropathy-0.422
Instability index69.07
Isoelectric point4.87
Molecular weight43985.17
Publications
PubMed=28538728

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:EnsemblPlants
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

>MDP14559
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.22|      17|      19|     304|     322|       1
---------------------------------------------------------------------------
  304-  322 (32.30/19.59)	PpnIVVPSGWKPGMPVQLP
  326-  342 (34.92/15.23)	P..ILPPAGWKPGDPVALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.59|      26|      32|       6|      32|       2
---------------------------------------------------------------------------
    6-   32 (47.66/23.67)	PHQMIQS.PARLGlPN....PNSPSLQTSTPP
   35-   65 (38.93/15.49)	PSQVPQSqPSNLH.PNllttPTSLTLLPLLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.37|      32|      32|      94|     125|       3
---------------------------------------------------------------------------
   94-  125 (53.33/38.00)	LSTFRGS.FPTFLSTQN.LSSTDSNPANSKEIIS
  127-  160 (42.04/28.33)	FSTLQAQlFEAVTELQEiLDLQDAKQKVTREIRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.65|      16|      21|     240|     255|       4
---------------------------------------------------------------------------
  240-  255 (28.78/18.92)	APLRGALPPAPQEEQM
  264-  279 (26.87/17.11)	ADLDVGLPKSDNKDKF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.72|      18|     180|     191|     208|       5
---------------------------------------------------------------------------
  191-  208 (29.66/18.68)	QAKRSKVDDSDESSSTTT
  374-  391 (31.05/19.86)	QVRHVQLDIADDSSSEYT
---------------------------------------------------------------------------




































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 MDP14559 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PVQLPTDLPILPPAGWKPGDPVALPPLESLSVPPRIEEQQPQPVHVPPFAKGPQPIQVRHVQLDIADDSSSEYTTDESSDDED
2) QMIQSPARLGLPNPNSPSLQTSTPPKFPSQVPQSQPSNLHPNLL
318
8
400
51










Molecular Recognition Features






MoRF SequenceStartStop




1) HVPPFAKGPQPIQVRHVQLDI
362
382