<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 MDP28707

Description Mediator of RNA polymerase II transcription subunit 19
SequenceMSAAIDEQTLPSYYYYVDPEVTYQASRPNPLEDLISAYGLQDLSHQVARANSDGSKAIKLRKSYKNQISELSGKFGTIPTRENGKGGEVAHILFQNNPDMMNQVRKESGMTPEEYHTAMINRDASLFEPPNLDWNMCRSVLSQFERSYPTEFQNQPGFQVEDLAFDLDGTGKVNAKKRKVKSNGSSMATPNSDMQEDVKRRRLE
Length204
PositionHead
OrganismTorulaspora delbrueckii (strain ATCC 10662 / CBS 1146 / NBRC 0425 / NCYC 2629 / NRRL Y-866) (Yeast) (Candida colliculosa)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Torulaspora.
Aromaticity0.08
Grand average of hydropathy-0.853
Instability index43.51
Isoelectric point5.72
Molecular weight23081.46
Publications
PubMed=22123960

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:RU364151
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coactivator activity	GO:0003713	IEA:EnsemblFungi
GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi
RNA polymerase II preinitiation complex assembly	GO:0051123	IEA:EnsemblFungi
transcription open complex formation at RNA polymerase II promoter	GO:0001113	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP28707
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.15|      29|      30|      93|     122|       1
---------------------------------------------------------------------------
   93-  122 (48.69/27.62)	LFQnNPDM.MNQVRKESGMTPEEYHTAMINR
  126-  155 (50.46/24.92)	LFE.PPNLdWNMCRSVLSQFERSYPTEFQNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.14|      26|      35|      26|      56|       2
---------------------------------------------------------------------------
   26-   56 (38.10/33.78)	SRPNPLEDLISAYGLQDlshqvARANSDGSK
   63-   88 (45.03/27.79)	SYKNQISELSGKFGTIP.....TRENGKGGE
---------------------------------------------------------------------------




































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 MDP28707 with Med19 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GKVNAKKRKVKSNGSSMATPNSDMQEDVKRRRLE
171
204










Molecular Recognition Features






MoRF SequenceStartStop




1) LPSYYYYVDPEVTY
2) TPNSDMQEDVKRRRL
10
189
23
203