<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 MDP03780

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMMQSHHPSPARLGLTASSPSLPPNPAAVNPTSSPPHGNPSASAAVAVGAAAAAAPTLTTSPSLLPLLPPLPRAQALLQLISALASNLFELSPNRAAWISAYRGSLPSFLPSSSSPPPPPLPAPISSTKEALSLLNTLQTQLFEAVAELQETLDLQDARARLAREARAKDASILAFAKKLREAHHVLDRLVDDYADYRRDPKRPRGAAAADDPEPVSDGDFGASLHSKLNLDDVLTYAHRISYTTFAPPEHGAGLPLRGALPPAPQENEMRMSQLYQFADLDVGVPKSQEAKDRTAAEGAATPLFQPSPIRAVLPITVPHPHGWQNVPLPLDIPLPPPGWKPGDPITLPPDSILAGVKGEEPRASVPHVPVVVPAMVPKAQEPIQVRHVDLDINNSSSSDEYSSDVGSSEEDDED
Length414
PositionMiddle
OrganismOryza punctata (Red rice)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Oryzoideae> Oryzeae> Oryzinae> Oryza.
Aromaticity0.04
Grand average of hydropathy-0.299
Instability index57.61
Isoelectric point5.22
Molecular weight43835.86
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: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

>MDP03780
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     166.12|      43|      44|      18|      61|       1
---------------------------------------------------------------------------
    8-   50 (50.33/14.42)	........SP.arlgltasSPSLPPN.PAAVNPTSS......P.......PHGNPSASAAVAVGAA
   52-   82 (36.32/ 9.09)	AAAPTLTTSP..........................sllpllP.......PL..PRAQALLQLISA
   83-  126 (41.84/ 9.04)	LASNLFELSPnraawisayRGSLPSFlPSSSSP.PP......P.......PLPAPISS........
  257-  296 (37.63/ 8.95)	...................RGALPPA.PQENEMRMS......QlyqfadlDVGVPKSQEAKDRTAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.95|      34|      40|     306|     345|       2
---------------------------------------------------------------------------
  306-  345 (53.70/38.11)	PSPIRAvlPITVPHPHGwqNVP.LPLDIPLPPPgwKPGDPI
  349-  383 (56.24/23.67)	PDSILA..GVKGEEPRA..SVPhVPVVVPAMVP..KAQEPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.14|      17|      42|     153|     169|       3
---------------------------------------------------------------------------
  153-  169 (28.25/15.97)	DLQDAR..ARLAREARAKD
  192-  210 (26.89/14.85)	DYADYRrdPKRPRGAAAAD
---------------------------------------------------------------------------




































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 MDP03780 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MMQSHHPSPARLGLTASSPSLPPNPAAVNPTSSPPHGNPSASAAV
2) PIQVRHVDLDINNSSSSDEYSSDVGSSEEDDED
3) QNVPLPLDIPLPPPGWKPGDPITLPPDSILAGVKGEE
1
382
324
45
414
360










Molecular Recognition Features






MoRF SequenceStartStop




NANANA