<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 MDP10913

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQNVPHQLLQSPARLGLPTPSSPSVQNPNPPPKFSSQVSQPNQPLQQANILTTTTTSSTLLPLLPPLSRAQSLLIQMASLASRLFEVSPNGSHWLSAFRGSFPSFLPSATPVPQDSFPSSSKEILSVFTSLQTQLFEAVAELQEILDLQDEKQKVIREIRSKDSSILAFANKLKEAERVLDMLVDDYSDYRRPKRAKLENDTEESSVTTVATQLKLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFADLDVGLPKLDEGKEKIIEPLIEPPAETNPLANIQGLITPNIVVPSGWKPGMPVELPSDLPFPPPGWKPGDPIALPPFDSLPLHPKVEEAPARPVPPPGLPRMPEPIQVRHVQLDIEDDSSDYSSDEASSDSED
Length399
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-0.399
Instability index77.85
Isoelectric point4.74
Molecular weight43649.85
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

>MDP10913
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.57|      29|      32|     310|     338|       1
---------------------------------------------------------------------------
  310-  338 (60.09/25.27)	PSGWKPGMP.VELPSDLPFPPPGW.KPGDPI
  342-  372 (45.48/17.27)	PFDSLPLHPkVEEAPARPVPPPGLpRMPEPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.68|      26|      33|       6|      33|       2
---------------------------------------------------------------------------
    6-   33 (46.57/30.85)	PHQLLQSPARLGLPTPSSPSVqnPNPPP
   42-   67 (47.11/25.08)	PNQPLQQANILTTTTTSSTLL..PLLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.02|      38|      39|     214|     251|       3
---------------------------------------------------------------------------
  163-  206 (37.20/14.35)	..KDSSILAFANKLkeaervldmlvdDYSDYRRPK....RAKLENDT..EES
  214-  251 (64.56/29.02)	QLKLSDILSYAHRI............SYTTFAPPEFGAGQAPLRGAL..PPA
  256-  291 (51.26/21.89)	QMRASQLYNFAD................LDVGLPKLDEGKEKIIEPLiePPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.51|      20|      32|      90|     110|       4
---------------------------------------------------------------------------
   90-  110 (34.96/22.76)	PNGS.HWLSAFRgSFPSFLPSA
  119-  139 (29.55/14.36)	PSSSkEILSVFT.SLQTQLFEA
---------------------------------------------------------------------------




































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 MDP10913 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LLQSPARLGLPTPSSPSVQNPNPPPKFSSQVSQPNQPLQQANIL
2) PVELPSDLPFPPPGWKPGDPIALPPFDSLPLHPKVEEAPARPVPPPGLPRMPEPIQVRHVQLDIEDDSSDYSSDEASSDSED
9
318
52
399










Molecular Recognition Features






MoRF SequenceStartStop




1) EAPARPVP
2) PGLPRMPEPIQVRHVQLDIEDDSSDYS
354
363
361
389