<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 MDP31774

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMNVTPLDELQWKSPEWIQVFGLRTENVLDYFAESPFFDKTSNNQVIKMQRQFSQLNDPNAAVNMTQNIMTLPDGKNGNLEEEFAYVDPARRQILFKYPMYMQLEEELMKLDGTEYVLSSVREPDFWVIRKQRRTNNSGVGSAKGPEIIPLQDYYIIGANIYQSPTIFKIVQSRLMSTSYHLNSTLESLYDLIEFQPSQGVHYKVPTDTSTTATAATNGNNAGGGSNKSSVRPTGGANMATVPSTTNVNMTVNTMGTGGQTIDNGTGRTGNGNMGITTEMLDKLMVTSIRSTPNYI
Length295
PositionHead
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.08
Grand average of hydropathy-0.479
Instability index46.92
Isoelectric point5.20
Molecular weight32818.52
Publications
PubMed=9234719
PubMed=8091229
PubMed=24374639
PubMed=7479899
PubMed=9845373
PubMed=9671455
PubMed=14562095
PubMed=14562106
PubMed=15175151
PubMed=15477388
PubMed=15710619
PubMed=16002404
PubMed=16076843
PubMed=16263706
PubMed=16885025
PubMed=17192271
PubMed=18407956
PubMed=19779198
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. 
GO - Cellular Component
core mediator complex	GO:0070847	IDA:SGD
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coactivator activity	GO:0003713	IDA:SGD

GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IDA:SGD
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
RNA polymerase II preinitiation complex assembly	GO:0051123	IDA:SGD









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31774
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.37|      32|      34|     205|     238|       1
---------------------------------------------------------------------------
  205-  238 (52.19/32.49)	PTDTSTTATAATNGnnAGGGSNKSSVRPTGGANM
  242-  273 (56.17/29.08)	PSTTNVNMTVNTMG..TGGQTIDNGTGRTGNGNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.60|      27|      86|      11|      37|       3
---------------------------------------------------------------------------
   11-   37 (52.31/34.84)	WKSPEWIQ....VFGLR.TENVLDYFAESPFF
   95-  126 (42.29/27.00)	FKYPMYMQleeeLMKLDgTEYVLSSVREPDFW
---------------------------------------------------------------------------




































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 MDP31774 with Med6 domain of Kingdom Fungi
Unable to open file!