<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 MDP20161

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSADGPPPLSLRPFPVADQKPKNLADFIARVNAQPGGFRAVTEAKLREELKNSESSDGAADEDEDMSSDAGPENEVAEKDPNVARMEVLKNIDIAGNTALLTLDSMSLLLSKQNPTQAGMTLSQQLREMVGIGTLGADRLHDSNVTPAKTKDQEAVAMGWTIMEINKTRDSAEDAAAFLEKEIAAESRYWEDIVSVKKAGWSVCKVPQERHTLGVRFGFSEAAPEFKNSGLAPMRRGDDGSTDLDFGRLGGVSEALVVTYERDGKVIGRSTTRSASEDGSLESRILEARNTIFSQELWHELTKESRSLAAYDVKPQGKKLTCQADDKTRITLELLPLESCPSHDQDLPENGLAEKTSMVLHILLSYAHRYNELTRIRPVPPHISRAARQQSYALLRPVLARTMYLKNIEESTQYVGLLVKTLQKAGLPSSVVLRTAQATASDPGPRGPNQLSASQTLVRNLLQTQDFTLEVTIVPGVSFIIRARAFSFPVTATYYYILLPPSSPLPALCPPWADGYPSVQALGDYLRTAISRVLTNHFYSTLASSSTSSKTPEAAQDNNTNSNNADRTTTQDLDKTDVNITLSLDHEGGDDATTPKGNLTLSLIMTEEQTGNPITWTWSLAGESETRSAADIVRSLSGMQATLN
Length645
PositionHead
OrganismTrichoderma longibrachiatum ATCC 18648
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.05
Grand average of hydropathy-0.415
Instability index48.68
Isoelectric point5.15
Molecular weight70266.99
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: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

>MDP20161
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.52|      14|      15|     610|     623|       1
---------------------------------------------------------------------------
  610-  623 (27.50/16.38)	QTGNPITWTWSLAG
  626-  639 (22.02/11.83)	ETRSAADIVRSLSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.62|      16|      18|     362|     379|       2
---------------------------------------------------------------------------
  362-  379 (25.90/20.19)	HIllSYAHRYNELTRIRP
  383-  398 (28.72/16.27)	HI..SRAARQQSYALLRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.50|      29|     106|     111|     141|       6
---------------------------------------------------------------------------
   79-  107 (45.36/25.03)	EKDPNVARMEVLKNIDIAGNTALLTLDSM
  113-  141 (47.13/24.32)	KQNPTQAGMTLSQQLREMVGIGTLGADRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.45|      16|      16|     457|     472|       8
---------------------------------------------------------------------------
  457-  472 (25.47/14.14)	TLVRN...LLQTQDFTLEV
  473-  491 (21.98/11.40)	TIVPGvsfIIRARAFSFPV
---------------------------------------------------------------------------




































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 MDP20161 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FRAVTEAKLREELKNSESSDGAADEDEDMSSDAGPENEVAEKDPNVAR
2) SSTSSKTPEAAQDNNTNSNNADRTTTQDLDKTDVNITLSLDHEGGDDATTPKGNLTLSLIM
39
546
86
606










Molecular Recognition Features






MoRF SequenceStartStop




1) LSLRPFPVADQKPKNLADFIARVNAQPGGFRAVTEAKLRE
2) YYYILL
10
495
49
500