<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 MDP31570

Description Mediator of RNA polymerase II transcription subunit 21
SequenceMTDRLTQLQICLDQMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQINKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLLRHVDSLIEDFVDGIANSKKST
Length140
PositionMiddle
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.04
Grand average of hydropathy-0.506
Instability index43.16
Isoelectric point4.91
Molecular weight16071.19
Publications
PubMed=7774808
PubMed=9169867
PubMed=24374639
PubMed=17322287
PubMed=11555651
PubMed=14562095
PubMed=14562106
PubMed=15175151
PubMed=15477388
PubMed=16002404
PubMed=16076843
PubMed=16263706
PubMed=17192271
PubMed=12191485
PubMed=15710619

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
GO - Cellular Component
core mediator complex	GO:0070847	IDA:SGD
mediator complex	GO:0016592	IDA:SGD
GO - Biological Function
RNA polymerase II repressing transcription factor binding	GO:0001103	IPI:SGD
transcription coactivator activity	GO:0003713	IDA:SGD
transcription coregulator activity	GO:0003712	IBA:GO_Central
transcription corepressor activity	GO:0003714	IMP:SGD
GO - Biological Process
F:transcription corepressor activity	GO:0003714	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

Interaction

Binary Interactions
[P47822<-->Q12343: MED4]	NbExp=4	EBI-18046,EBI-31503
[P47822<-->Q08278: MED7]	NbExp=5	EBI-18046,EBI-10674
[P47822<-->P52286: SKP1]	NbExp=2	EBI-18046,EBI-4090
[P47822<-->P38633: SOH1]	NbExp=3	EBI-18046,EBI-17658

Repeat regions

Repeats

>MDP31570
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.97|      13|      15|      67|      80|       1
---------------------------------------------------------------------------
   67-   80 (16.74/13.77)	ILKTRQINKlIDSL
   85-   97 (21.23/12.55)	VSAEEQLRK.IDML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.41|      11|      14|     100|     110|       2
---------------------------------------------------------------------------
  100-  110 (17.34/10.19)	KLVEVEDEKIE
  117-  127 (18.07/10.86)	KLLRHVDSLIE
---------------------------------------------------------------------------


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 MDP31570 with Med21 domain of Kingdom Fungi



     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




NANANA









Molecular Recognition Features






MoRF SequenceStartStop




1) LLRHV
118
122