<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 MDP06542

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNVPHQIIQSPARLGLPNPNSPSLQTPAPPKFSSQIPQSHPPVLHPNLLTTPTSLTLLPLLPPLSRAQSILLRMASLTSRLFEVSSNQAQWRSTFRGSFPTFLSTQTVSSPDSSPATSKEIIALFTTLQTQLFESVTELQEILDLQDAKQKITREIRSKDSAILAFANKLKEAERVLDILVDDYSDYRRLKRSKVEENEESSSTTTVATQLNLSDILSYAHRISYTTFAPPEFGAGTAPLRGALPPAPQEEQMRASQLYSFADLDVGLPKLAENEKFAVEPLAENPSDPNSLANMVIKDMLPPNIVVPSGWKPGMPVQLPTDLPILPPAGWKPGDPVALPPLDSLGGPPRTEDQQTQPIHVPGFAKGPQPIQVRHVQLDIDDDSSSEYSSEDDSSDED
Length400
PositionMiddle
OrganismCynara cardunculus var. scolymus (Globe artichoke) (Cynara scolymus)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> campanulids> Asterales> Asteraceae> Carduoideae> Cardueae> Carduinae> Cynara.
Aromaticity0.06
Grand average of hydropathy-0.400
Instability index72.19
Isoelectric point4.84
Molecular weight43780.85
Publications
PubMed=26786968

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:EnsemblPlants
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

>MDP06542
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.74|      18|      19|     312|     330|       1
---------------------------------------------------------------------------
  312-  330 (37.84/18.03)	GWKPGMPVQLPtDLPIL..PP
  332-  351 (34.91/12.93)	GWKPGDPVALP.PLDSLggPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.50|      22|      32|     140|     161|       2
---------------------------------------------------------------------------
  140-  161 (35.82/29.41)	ELQEILD.LQDAKQKITREIRSK
  174-  196 (32.68/26.18)	EAERVLDiLVDDYSDYRRLKRSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.15|      28|     242|      33|      65|       3
---------------------------------------------------------------------------
   33-   65 (38.95/33.21)	KFSSQiPQSHPPVlHPNLLttpTSLTLLPLLPP
  278-  305 (50.20/24.97)	KFAVE.PLAENPS.DPNSL...ANMVIKDMLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.21|      22|     117|     239|     267|       5
---------------------------------------------------------------------------
  239-  260 (39.50/23.61)	TAPLR.GALPPAPQEEQMRASQL
  358-  380 (37.71/10.12)	TQPIHvPGFAKGPQPIQVRHVQL
---------------------------------------------------------------------------




































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 MDP06542 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IQSPARLGLPNPNSPSLQTPAPPKFSSQIPQSHPPVLH
2) PVQLPTDLPILPPAGWKPGDPVALPPLDSLGGPPRTEDQQTQPIHVPGFAKGPQPIQVRHVQLDIDDDSSSEYSSEDDSSDED
10
318
47
400










Molecular Recognition Features






MoRF SequenceStartStop




1) VPGFAKGPQPIQVRHVQLDIDDDSSSEYSSEDD
363
395