<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 MDP10908

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNVQHQLLQSPARLGLPTPSSPSLQNPIAPPKFSSQVSQHLQPHQQANILTTTTTSSTLLPLLPPLSRAQCLLIQMSSLSSRLFEVSANRSHWLSAFRGSFPSFLPSAAPVPQDSYPSSSKEIFSVFTSLQTQLFEAVAELQEILDLQDEKQKVTREIRSNDSAILAFANKLKGAERVLDNLVDDYSDYRRPKRVKLENDIDESSVTTVATQLKLSDILSYAHRISYTTFAPPEFGAGRAPLRGALPPAPQDEQMRASQLYNFANLDVGLPKTDDDKEKIIEPLIEPSADITNLSAIPGLIPPNIIVPSGWKPGMPVELPTDLPLPPPGWKPGDPIALPPVDSLPLPPKVEEAPARPVPPPGLPRMPEPIQVRHVQLDIEDDSSDYSSEASSDSED
Length398
PositionMiddle
OrganismNicotiana attenuata (Coyote tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.06
Grand average of hydropathy-0.361
Instability index76.07
Isoelectric point4.89
Molecular weight43546.78
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

>MDP10908
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     110.37|      18|      18|     312|     329|       1
---------------------------------------------------------------------------
  235-  251 (23.37/ 6.75)	P......EFGAGrAP..LRG.A.LPPA
  312-  328 (32.89/12.39)	.......GWKPG.MPVELPT.D.LPLP
  329-  349 (27.69/ 9.31)	P.....pGWKPG.DPIALPPvDsLPLP
  350-  371 (26.43/ 8.56)	PkveeapA.RPV.PPPGLPR...MPEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.55|      12|      15|     178|     189|       3
---------------------------------------------------------------------------
  178-  189 (21.34/14.32)	ERV.LDNLVDDYS
  195-  207 (16.21/ 9.34)	KRVkLENDIDESS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.11|      33|      77|      22|      60|       4
---------------------------------------------------------------------------
   22-   60 (48.89/36.75)	SSPSLQnPIAPPkfssqVSQHLQPHQQANILTTTTTSST
  102-  134 (59.21/29.88)	SFPSFL.PSAAP.....VPQDSYPSSSKEIFSVFTSLQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.21|      14|      15|     276|     289|       5
---------------------------------------------------------------------------
  276-  289 (24.33/12.52)	DDDKEKIIEPLIEP
  292-  305 (24.88/12.96)	DITNLSAIPGLIPP
---------------------------------------------------------------------------




































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 MDP10908 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PVELPTDLPLPPPGWKPGDPIALPPVDSLPLPPKVEEAPARPVPPPGLPRMPEPIQVRHVQLDIEDDSSDYSSEASSDSED
318
398










Molecular Recognition Features






MoRF SequenceStartStop




1) PGLPRMPEPIQVRHVQLDIEDDSSDY
363
388