<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 MDP24656

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLPYRRPDSPLLSSLISRTASATKLNQLYQDSATRSATATPSAYVTSSLNPARNVPILDSSSRFQNGNPSIDSLPVISHIDEFRALLDELSEAVTLFKDDEVFTKFEKLTKLNTTIENDIKELHLHKQRRKSLKQLQNRHKSLDDLQKNTLKKLLSYRSELRKLPRAKTYELKQDKDNDPNSLKIDVKDIFAYSMKLAKFSKAPVAMGNLSHQIHPNNYIWPAEDSLRRGMLAMSYIQEKEILENVLGEEKPVSVAKEETSKENSERVSILPSKESGDTSLNGTPHPSNRDHIEIAPTAPTAPTAVDEDENGYSNEVADLDLDLFDPDAELSD
Length333
PositionMiddle
OrganismLodderomyces elongisporus (strain ATCC 11503 / CBS 2605 / JCM 1781 / NBRC 1676 / NRRL YB-4239) (Yeast) (Saccharomyces elongisporus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Candida/Lodderomyces clade> Lodderomyces.
Aromaticity0.05
Grand average of hydropathy-0.704
Instability index49.84
Isoelectric point5.61
Molecular weight37459.56
Publications
PubMed=19465905

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

>MDP24656
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.22|      29|      33|     135|     167|       1
---------------------------------------------------------------------------
  135-  167 (41.88/34.32)	QLQNRHksldDLQKNTL....KKLLSYRSELRKLPRA
  171-  203 (41.34/24.51)	ELKQDK....DNDPNSLkidvKDIFAYSMKLAKFSKA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.15|      12|      27|      31|      42|       2
---------------------------------------------------------------------------
   31-   42 (20.50/14.02)	DSATRSATATPS
   59-   70 (22.65/16.27)	DSSSRFQNGNPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.78|      18|      33|     235|     252|       3
---------------------------------------------------------------------------
  235-  252 (30.06/19.86)	SYIQEKEILENVL.GEEKP
  269-  287 (27.72/17.79)	SILPSKESGDTSLnGTPHP
---------------------------------------------------------------------------




































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 MDP24656 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LGEEKPVSVAKEETSKENSERVSILPSKESGDTSLNGTPHPSNRDHIEIAPTAPTAPTAVDEDENGYSNEVADLDLDLFDPDAELSD
247
333










Molecular Recognition Features






MoRF SequenceStartStop




1) MLPYRR
2) RDHIEIAP
3) TAVDEDENGYSNEVADLDLDLFDPDAELSD
1
290
304
6
297
333