<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 MDP13984

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKQLDVCFDRVEKALGTLVDSIAKYHPSVAQVNDLGLADIELNKGLENLQTHQANYRRIQDLRAATASFDAQIKDTLRLLANTRKELVGARATIFPSDVPSYDINYDELLAYARRISKTTMPPAGTINSASTDAEAKNGEGSAMQTAAATPAGQTPNDTQPAVANGIQPQNQDPNSQPQSQPNTSITTPSGGNAATNLPEEMQMNMNPYTGFEFIPWPNEEQVRQGALVSLAFLAEQGIDPENYDPEEEKLRKKREEDEQKEAEERERQEREERERRAREEQARMRAQREKEQAEAYRRGSVMIGATGGPSQPGSASPVGEKKQFQFMADDDEDDDE
Length338
PositionMiddle
OrganismHypoxylon sp. CO27-5
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Xylariomycetidae> Xylariales> Hypoxylaceae> Hypoxylon.
Aromaticity0.05
Grand average of hydropathy-0.975
Instability index50.24
Isoelectric point4.66
Molecular weight37516.71
Publications
PubMed=28078400

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

>MDP13984
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.80|      18|      24|      83|     106|       1
---------------------------------------------------------------------------
   86-  106 (28.43/22.72)	KELVG.AR...ATIFPsdvPSYDIN
  108-  129 (23.37/ 6.23)	DELLAyARrisKTTMP...PAGTIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.92|      21|      22|     249|     270|       2
---------------------------------------------------------------------------
  249-  270 (30.37/19.85)	EEKLRKKREEDEQKEAeERERQ
  273-  293 (35.55/19.24)	EERERRAREEQARMRA.QREKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.16|      19|      24|     139|     160|       3
---------------------------------------------------------------------------
  139-  158 (29.83/23.60)	NGEGSAMQTAAATPAGQtPN
  166-  184 (37.33/18.01)	NGIQPQNQDPNSQPQSQ.PN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.56|      26|      26|      33|      58|       4
---------------------------------------------------------------------------
    6-   27 (28.88/20.09)	..DVCFDRVE..KALGTLVDSIAKYH
   33-   58 (41.47/31.92)	VNDLGLADIELNKGLENLQTHQANYR
   60-   85 (36.20/26.97)	IQDLRAATASFDAQIKDTLRLLANTR
---------------------------------------------------------------------------




































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 MDP13984 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) TMPPAGTINSASTDAEAKNGEGSAMQTAAATPAGQTPNDTQPAVANGIQPQNQDPNSQPQSQPNTSITTPSGGNAATNLPEEMQMNMNPYTGFEFIPWPNEEQVRQGALVSLAFLAEQGIDPENYDPEEEKLRKKREEDEQKEAEERERQEREERERRAREEQARMRAQREKEQAEAYRRGSVMIGATGGPSQPGSASPVGEKKQFQFMADDDEDDDE
121
338










Molecular Recognition Features






MoRF SequenceStartStop




1) EQAEAYRRGSVMIGATGGP
2) FEFIPW
3) PGSASPVGEKKQFQFMADDDEDDDE
293
213
314
311
218
338