<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 MDP28531

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSILNPNPQKLPPSQTNHHQDRHSATPSAALISLLPPLPRAQALLSQMASLASKLFEVSPNRSVWVTAFRGSLPTFLSSQTQPHSFSSLESSLPSTTKEIISLFTTLQTQIFEAVSELQEIIDLQDAKKKIDGEIRSKDSALLAFANKLKDAERELDILVDDYSDYRRSIKRLKSGDGSEDDSLTTSTVSSQLKLSDILSYAHRISYTTFAPPEFGAGTAPLRGAMPPAPQDEQMRASQLYNFADLDIGLPKAVETKEKTVEAIIEPPPSVDTNPLGNLSAIQGMLPPNFAIPPGWKPGMPVQLPIDMPIKPPPGWKPGDPVALPPIDSLPVPRFEEQKLPPHIPQPRQPEIIQVQHVNLDLGGESDSSDYSSDEASSDDED
Length402
PositionMiddle
OrganismMedicago truncatula (Barrel medic) (Medicago tribuloides)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> Hologalegina> IRL clade> Trifolieae> Medicago.
Aromaticity0.05
Grand average of hydropathy-0.437
Instability index61.42
Isoelectric point4.95
Molecular weight43852.94
Publications
PubMed=22089132
PubMed=24767513
PubMed=30397259

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

>MDP28531
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.47|      17|      17|     309|     325|       1
---------------------------------------------------------------------------
  309-  325 (36.91/18.03)	NFAI..PPGWKPGMPVQLP
  327-  345 (33.01/15.35)	DMPIkpPPGWKPGDPVALP
  349-  365 (29.55/12.98)	SLPV..PRFEEQKLPPHIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.24|      21|      37|      55|      75|       2
---------------------------------------------------------------------------
   55-   75 (34.95/19.21)	LPPLPRAQALLSQMASLASKL
   93-  113 (36.28/20.23)	LPTFLSSQTQPHSFSSLESSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.22|      26|      37|     133|     159|       3
---------------------------------------------------------------------------
  133-  159 (36.53/35.99)	EAVSELQEII.DLQDAKKKIDgEIRSKD
  171-  197 (38.69/31.48)	DAERELDILVdDYSDYRRSIK.RLKSGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.99|      16|      16|     274|     289|       4
---------------------------------------------------------------------------
  274-  289 (27.73/16.21)	VETKE.KTVEAIIEP.PP
  291-  308 (21.27/10.72)	VDTNPlGNLSAIQGMlPP
---------------------------------------------------------------------------




































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 MDP28531 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PVQLPIDMPIKPPPGWKPGDPVALPPIDSLPVPRFEEQKLPPHIPQPRQPEIIQVQHVNLDLGGESDSSDYSSDEASSDDED
2) VQSPARLGLTNPNSPSILNPNPQKLPPSQTNHHQDRHSATPSAAL
321
7
402
51










Molecular Recognition Features






MoRF SequenceStartStop




1) EEQKL
356
360