<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 MDP31513

Description Mediator of RNA polymerase II transcription subunit 19
SequenceMASRVDETTVPSYYYYVDPETTYTYQQPNPLQDLISVYGLDDISRQVARTNLDGTKAVKLRKSYKNQIADLSGKFSTIPTRENGKGGQIAHILFQNNPDMMIQPPQQGQNMSEQQWREQLRNRDIALFQPPNFDWDLCSSVLSQFERSYPSEFANQNQGGAQAPFDIDDLAFDLDGTGKSQSGSNSGNNSKKRKNKSSGSSMATPTHSDSHEDMKRRRLE
Length220
PositionHead
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.09
Grand average of hydropathy-1.001
Instability index52.34
Isoelectric point5.96
Molecular weight24857.04
Publications
PubMed=1656237
PubMed=7502586
PubMed=7813418
PubMed=24374639
PubMed=17322287
PubMed=8995225
PubMed=11555651
PubMed=14562095
PubMed=14562106
PubMed=15175151
PubMed=15477388
PubMed=16002404
PubMed=16076843
PubMed=16263706
PubMed=16630888
PubMed=17192271
PubMed=12191485

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. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. The Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. 
ECO:0000269	PubMed:11555651
ECO:0000269	PubMed:16076843
ECO:0000269	PubMed:16263706
ECO:0000269	PubMed:17192271
GO - Cellular Component
core mediator complex	GO:0070847	IDA:SGD
mediator complex	GO:0016592	IBA:GO_Central
nucleus	GO:0005634	IDA:SGD
GO - Biological Function
transcription coactivator activity	GO:0003713	IMP:SGD
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
F:transcription coactivator activity	GO:0003713	IMSGD
negative regulation of transcription by RNA polymerase II	GO:0000122	IMSGD
positive regulation of transcription by RNA polymerase II	GO:0045944	IMSGD
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
RNA polymerase II preinitiation complex assembly	GO:0051123	IMSGD
transcription open complex formation at RNA polymerase II promoter	GO:0001113	IMSGD

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP31513
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     147.45|      48|     124|      20|      83|       1
---------------------------------------------------------------------------
   26-   83 (63.70/57.67)	QQPNPLQDLisVYGLDDISRQVARTNlDGTKAvklrKSYKNQiadLSGKFSTIPTREN
  162-  209 (83.74/38.16)	QAPFDIDDL..AFDLDGTGKSQSGSN.SGNNS....KKRKNK...SSGSSMATPTHSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.97|      10|      23|      97|     106|       2
---------------------------------------------------------------------------
   97-  106 (21.97/13.90)	NPDM.MIQPPQ
  122-  132 (16.01/ 8.41)	NRDIaLFQPPN
---------------------------------------------------------------------------




































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 MDP31513 with Med19 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GGQIAHILFQNNPDMMIQPPQQGQNMSEQQWREQLRNR
2) SYPSEFANQNQGGAQAPFDIDDLAFDLDGTGKSQSGSNSGNNSKKRKNKSSGSSMATPTHSDSHEDMKRRRLE
86
148
123
220










Molecular Recognition Features






MoRF SequenceStartStop




1) PFDIDDLAFDLD
2) PSYYYY
164
11
175
16