<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 MDP33904

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSLQNHPTTPPKLPPSQPSTILPSSSSSSSASASAATAAAATTTTTSSALLSLLPPLPRAQSLLLQMASLASRLFEVSPNRSLWHTAFRGNLPTFLSSQTTQQSLDSSPSSTKEILSLFTALQTQLFESVAQLQEILDLQDAKNKVVREIRSKDSALLAFGHKVKEAERVLDILVDDYSDYRHPKRSKLDDDAMDDDGGTSSSTTVASQLNLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQEEQLRASQLYNFASLDVGLPKIVESDEKTVEPMIEPPAPAPTESNPLANLATIQGLLHPNITVPSGWKPGMPVELPTDLPMPPPGWKPGDPVPLPPLASLPVPRVGEQQLRPKPPEPIQVRPVQLDIIDQDDDSSDYSSEEGTSEDDD
Length416
PositionMiddle
OrganismMorus notabilis
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Moraceae> Morus.
Aromaticity0.04
Grand average of hydropathy-0.399
Instability index75.36
Isoelectric point4.73
Molecular weight44705.59
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

>MDP33904
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.11|      17|      18|     332|     348|       1
---------------------------------------------------------------------------
  332-  348 (37.71/16.90)	PSGWKPGMPVELP..TDLP
  351-  369 (34.41/14.78)	PPGWKPGDPVPLPplASLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.20|      17|      18|     120|     136|       4
---------------------------------------------------------------------------
  120-  136 (28.37/17.95)	TTQQS.LDSSPSSTKEIL
  140-  157 (22.84/12.96)	TALQTqLFESVAQLQEIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.28|      24|      37|     264|     290|       5
---------------------------------------------------------------------------
  264-  290 (36.97/23.40)	PPAPQEEQlrASQLYNFASLDvGL..PKI
  304-  329 (39.30/16.82)	PPAPAPTE..SNPLANLATIQ.GLlhPNI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.12|      11|     201|     191|     201|       6
---------------------------------------------------------------------------
  191-  201 (22.05/14.23)	LDIL..VDDYSDY
  393-  405 (17.06/ 9.52)	LDIIdqDDDSSDY
---------------------------------------------------------------------------




































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 MDP33904 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ITVPSGWKPGMPVELPTDLPMPPPGWKPGDPVPLPPLASLPVPRVGEQQLRPKPPEPIQVRPVQLDIIDQDDDSSDYSSEEGTSEDDD
2) IVQSPARLGLTNPNSPSLQNHPTTPPKLPPSQPSTILPSSSSS
3) KIVESDEKTVEPMIEPPAPAPTESNPLANLATIQG
329
6
289
416
48
323










Molecular Recognition Features






MoRF SequenceStartStop




1) VGEQQLRPKPPEPIQVRPVQLDIIDQDDDSSDYSSEEGTSEDDD
373
416