<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 MDP20004

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSPNGLSNGLPISLRPAPKPTNNAIPLPLLISRINAERGSFRNLSEDSLRQEIAEAEAGGNKEEDESSSDGEDEEEEKEEPDRMKELLTAREEILGQIEHAHNSAMIALDFVSLLLSKDAPVQASTSMSPALREAAGMGTLGADKTQASRVTDQQKQENKKVAKGWKASNLNKTVDSILASATRLEKEIDAETKYWEQVLAVSESGWAVCRMPQEKHTLGVRFGFAEAAPAFRNRSLAALRRNPDGSIYLDQGIISKEPQYLRVRIETNGITTGETILPKAVPEDAPIQDLIFQARNTIFAAELWQELHRESRNLASYGVESHSTNDTITCPLSPTKYIVLDLQPLPNDPFRPVLGKRPDSYLATAVHLMLHLLLSLAHRQNHRKRTAPPPPISHTQRPNQAYHLLRSVITRLSHESSISSLHSLLAPLCSTLASSTHPYPLSYTITPSSTPQFPHLPTPERILTSLVDRLESITVLHFPIPISSSNSEPETNTTLTIQSLTSLLPFSKPTFRLSLTPPTSPLVGICPPPQLLGEWSQVKEYVFWSVGCWLGVRFAEEREGGWMRTTQGNVLRREVGEGVKQVGFEVGEVEGEDGGGIRIKVRWEWMRGVEGEVGAGNGKGLGRGEGEREWVVGGSGSKEPNGVGKGFEMIRQVLEEAGRL
Length662
PositionHead
OrganismRutstroemia sp. NJR-2017a WRK4
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Rutstroemiaceae> Rutstroemia> unclassified Rutstroemia.
Aromaticity0.06
Grand average of hydropathy-0.433
Instability index48.77
Isoelectric point5.84
Molecular weight72817.42
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

>MDP20004
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.52|      29|      35|     434|     468|       1
---------------------------------------------------------------------------
  434-  468 (45.88/37.36)	LASST..H.PYPLSytitpSSTPQfPHLPTPERI..LTSL
  472-  505 (38.64/18.09)	LESITvlHfPIPIS.....SSNSE.PETNTTLTIqsLTSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.18|      37|      42|     561|     601|       2
---------------------------------------------------------------------------
  535-  556 (33.32/14.75)	.GEW..........SQVKEYVfWSVGCWLG..........VRF
  561-  601 (65.51/43.32)	EGGWMRTTQGnvlrREVGEGV.KQVGFEVGEVEGEDGG.GIRI
  606-  638 (46.36/23.10)	E..WMRGVEG.....EVGAGNgKGLGRGEGEREWVVGGsG...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.79|      12|     136|     376|     393|       4
---------------------------------------------------------------------------
  376-  393 (18.25/18.40)	LSLAhrqnhrKRTAP.....PPP
  515-  531 (20.54/ 7.21)	LSLT......PPTSPlvgicPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     144.10|      48|      82|      30|      79|       5
---------------------------------------------------------------------------
   30-   79 (67.18/48.25)	LLISRiNAERGSFRNLSeDSLRQEIAEAEAGGNKEEDESSSDGEDEEEEK
  115-  162 (76.91/46.62)	LLLSK.DAPVQASTSMS.PALREAAGMGTLGADKTQASRVTDQQKQENKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.23|      15|     182|     172|     186|       6
---------------------------------------------------------------------------
  172-  186 (24.86/16.13)	LNKTVDSILASATRL
  356-  370 (27.36/18.45)	LGKRPDSYLATAVHL
---------------------------------------------------------------------------




































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 MDP20004 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FRNLSEDSLRQEIAEAEAGGNKEEDESSSDGEDEEEEKEEPDRMKELLTAREEIL
2) MSSPNGLSNGLPISLRPAPKPTNNAIPLPL
3) QASTSMSPALREAAGMGTLGADKTQASRVTDQQKQENKKVAKGW
42
1
124
96
30
167










Molecular Recognition Features






MoRF SequenceStartStop




1) AIPLPLLISRI
25
35