<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 MDP13870

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAGAPPPLDETQWRDPHTAASMQGIHSNSVLHYFAASPFSDPTSNNAVIITQSQWNRDMHQYLVTRDAFEGRLKTMSGLEYIVAQEPSVMGPGAGTGVWVIRKQTRRKRANEEDEITVHSSYFVVGDNIYMAPTLADIMSYRMATVESKLRKCFPVASEVSTWSPAAGHAYTIPTTSSNPRERTSTSKEATPMPDGESHTSKAAGVSESKKPGQSTMLDARLAEQSFTIHMQYGSEYMDENPITGKPGEFHLSSTGRKDRMVQAPGNMPSLTTSFKSPTVPDLGGKRDVTGKGDKTPKTPTSGPGSKPKRKKSKAGTTPGTTPTAS
Length326
PositionHead
OrganismPseudomassariella vexata
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Xylariomycetidae> Xylariales> Pseudomassariaceae> Pseudomassariella.
Aromaticity0.06
Grand average of hydropathy-0.700
Instability index43.63
Isoelectric point9.23
Molecular weight35299.17
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. 


	RuleBase:RU364143

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
>MDP13870
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     163.16|      36|      36|     142|     177|       1
---------------------------------------------------------------------------
   72-   99 (40.21/21.28)	..........................................RLKTM.SGLE..YIVAQEPSVMGPGAGTGVW
  100-  172 (40.69/21.62)	VIRKQtrrkraneedeitvhssyfvvgdniymaptladimsyRMATVESKLRKCFPVASEVSTWSPAAGHAYT
  173-  209 (45.33/24.89)	IPTTS..................................snpRERTSTSK..EATPMPDGESHTSKAAGVSES
  211-  246 (36.93/18.98)	KPGQS................................tmldaRLA..EQSFTIHMQYGSEYMDENPITGK...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.48|      13|      16|     292|     304|       2
---------------------------------------------------------------------------
  292-  304 (24.70/10.18)	KGDKTPKTPTSGP
  311-  323 (22.79/ 8.90)	KKSKAGTTPGTTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.30|      16|      16|     247|     262|       3
---------------------------------------------------------------------------
  247-  262 (29.11/14.95)	PGEFHLSSTGRKDRMV
  265-  280 (29.19/15.01)	PGNMPSLTTSFKSPTV
---------------------------------------------------------------------------




































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 MDP13870 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGHAYTIPTTSSNPRERTSTSKEATPMPDGESHTSKAAGVSESKKPGQSTMLDARLAEQ
2) TIHMQYGSEYMDENPITGKPGEFHLSSTGRKDRMVQAPGNMPSLTTSFKSPTVPDLGGKRDVTGKGDKTPKTPTSGPGSKPKRKKSKAGTTPGTTPTAS
167
228
225
326










Molecular Recognition Features






MoRF SequenceStartStop




1) TSGPGSKPKRKKSKAGTT
301
318