<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 MDP27517

Description Mediator of RNA polymerase II transcription subunit 17 (Fragment)
SequenceMEEQPWKNLKLSLERPYKDDKGEPIPVLLDIHPDGTHVYEPKEDPSKKLGQNLRRIFLERGLDFFDSGNRPNLQEESSTPLEKEDGAEGPEESQDISKPTMTPEELFQMRTEIMPQLYIALGEMSHAKELLSLLLASTNPSEPSPVPSLPPATLAATMVTKPAPIISVQAFDAQLNTGGKDEALRKAADLFKSAANSLESGRLRGEKYWLDALRIRRANWGLAPAPLPFGAPTGKGVDKTSKDFLISFGLEGSTAYFRRKAIGHMPTDPTTPDPLVFPHRQRTRLYISLNMVDAKGAQVESHNSIVASDDSSLEGSLAASQREIVEEEIFSTLIKEASSLPTASARVAERLIDIDAAQGMELRFELRDSDGIQESLQSNNSQVATTMCDLIYSLLCALLLGMHTHKKLQRIGHAGVAHVLPQGSSSYTLLQPIIDLLQYQVFC
Length443
PositionHead
OrganismSerpula lacrymans var. lacrymans (strain S7.3) (Dry rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Boletales> Coniophorineae> Serpulaceae> Serpula.
Aromaticity0.06
Grand average of hydropathy-0.368
Instability index48.87
Isoelectric point5.24
Molecular weight48808.87
Publications
PubMed=21764756

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:RU364140
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

>MDP27517
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.44|      26|      60|     235|     260|       2
---------------------------------------------------------------------------
  235-  260 (44.64/31.08)	KGVDKTSKDFLIS...FGLEGSTAYFRRK
  295-  323 (36.80/24.40)	KGAQVESHNSIVAsddSSLEGSLAASQRE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.74|      23|     166|     102|     127|       4
---------------------------------------------------------------------------
  102-  127 (34.70/31.45)	TPEEL.FQMRTeiMPQLYIALgEMSHA
  271-  294 (40.04/24.28)	TPDPLvFPHRQ..RTRLYISL.NMVDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.02|      29|      53|      14|      47|       6
---------------------------------------------------------------------------
   14-   47 (49.61/33.96)	ERP.YKDDKGEPIPvlldiHPDGTHVYEPKEDPSK
   69-   98 (45.41/22.40)	NRPnLQEESSTPLE.....KEDGAEGPEESQDISK
---------------------------------------------------------------------------




































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 MDP27517 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EQPWKNLKLSLERPYKDDKGEPIPVLLDIHPDGTHVYEPKEDPS
2) SGNRPNLQEESSTPLEKEDGAEGPEESQDISKPTMTPEELF
3
67
46
107










Molecular Recognition Features






MoRF SequenceStartStop




1) EPIPVLLDIHPDGTHVYE
2) KKLGQNLRRIFLERGLDFFDS
3) MEEQPWKNLKLSLERPYKD
23
47
1
40
67
19