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Protein

Mediator of RNA polymerase II transcription subunit 6

Gene

MED6

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

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.5 Publications

GO - Molecular functioni

GO - Biological processi

  • positive regulation of transcription from RNA polymerase II promoter Source: SGD
  • RNA polymerase II transcriptional preinitiation complex assembly Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-31111-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Mediator of RNA polymerase II transcription subunit 6
Alternative name(s):
Mediator complex subunit 6
Gene namesi
Name:MED6
Synonyms:MTR32
Ordered Locus Names:YHR058C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VIII

Organism-specific databases

EuPathDBiFungiDB:YHR058C.
SGDiS000001100. MED6.

Subcellular locationi

GO - Cellular componenti

  • core mediator complex Source: SGD
  • mediator complex Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 295295Mediator of RNA polymerase II transcription subunit 6PRO_0000096391Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei225 – 2251PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP38782.

PTM databases

iPTMnetiP38782.

Interactioni

Subunit structurei

Component of the Mediator complex, which is composed of at least 21 subunits that form three structurally distinct submodules. The Mediator head module contains MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22, the middle module contains MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31, and the tail module contains MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. MED6 interacts directly with SRB4/MED17 and SRB7/MED21.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SRB4P325693EBI-10667,EBI-18025

Protein-protein interaction databases

BioGridi36490. 38 interactions.
DIPiDIP-2093N.
IntActiP38782. 18 interactions.
MINTiMINT-542534.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3J1Oelectron microscopy16.00N166-190[»]
3RJ1X-ray4.30G/N/U1-295[»]
4GWPX-ray4.20G1-295[»]
4GWQX-ray4.50G1-295[»]
4V1Oelectron microscopy9.70S1-295[»]
ProteinModelPortaliP38782.
SMRiP38782. Positions 1-192.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the Mediator complex subunit 6 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000017666.
HOGENOMiHOG000093949.
InParanoidiP38782.
KOiK15128.
OMAiIKMQRQF.
OrthoDBiEOG7MD52F.

Family and domain databases

InterProiIPR007018. Mediator_Med6.
IPR016612. Mediator_Med6_fun.
[Graphical view]
PANTHERiPTHR13104. PTHR13104. 2 hits.
PfamiPF04934. Med6. 1 hit.
[Graphical view]
PIRSFiPIRSF013286. MED6_fungi. 1 hit.

Sequencei

Sequence statusi: Complete.

P38782-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNVTPLDELQ WKSPEWIQVF GLRTENVLDY FAESPFFDKT SNNQVIKMQR
60 70 80 90 100
QFSQLNDPNA AVNMTQNIMT LPDGKNGNLE EEFAYVDPAR RQILFKYPMY
110 120 130 140 150
MQLEEELMKL DGTEYVLSSV REPDFWVIRK QRRTNNSGVG SAKGPEIIPL
160 170 180 190 200
QDYYIIGANI YQSPTIFKIV QSRLMSTSYH LNSTLESLYD LIEFQPSQGV
210 220 230 240 250
HYKVPTDTST TATAATNGNN AGGGSNKSSV RPTGGANMAT VPSTTNVNMT
260 270 280 290
VNTMGTGGQT IDNGTGRTGN GNMGITTEML DKLMVTSIRS TPNYI
Length:295
Mass (Da):32,819
Last modified:February 1, 1995 - v1
Checksum:iB84E87DCC2737849
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U78080 mRNA. Translation: AAB57643.1.
U00061 Genomic DNA. Translation: AAB68387.1.
BK006934 Genomic DNA. Translation: DAA06751.1.
PIRiS46708.
RefSeqiNP_011925.1. NM_001179188.1.

Genome annotation databases

EnsemblFungiiYHR058C; YHR058C; YHR058C.
GeneIDi856455.
KEGGisce:YHR058C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U78080 mRNA. Translation: AAB57643.1.
U00061 Genomic DNA. Translation: AAB68387.1.
BK006934 Genomic DNA. Translation: DAA06751.1.
PIRiS46708.
RefSeqiNP_011925.1. NM_001179188.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3J1Oelectron microscopy16.00N166-190[»]
3RJ1X-ray4.30G/N/U1-295[»]
4GWPX-ray4.20G1-295[»]
4GWQX-ray4.50G1-295[»]
4V1Oelectron microscopy9.70S1-295[»]
ProteinModelPortaliP38782.
SMRiP38782. Positions 1-192.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36490. 38 interactions.
DIPiDIP-2093N.
IntActiP38782. 18 interactions.
MINTiMINT-542534.

PTM databases

iPTMnetiP38782.

Proteomic databases

MaxQBiP38782.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYHR058C; YHR058C; YHR058C.
GeneIDi856455.
KEGGisce:YHR058C.

Organism-specific databases

EuPathDBiFungiDB:YHR058C.
SGDiS000001100. MED6.

Phylogenomic databases

GeneTreeiENSGT00390000017666.
HOGENOMiHOG000093949.
InParanoidiP38782.
KOiK15128.
OMAiIKMQRQF.
OrthoDBiEOG7MD52F.

Enzyme and pathway databases

BioCyciYEAST:G3O-31111-MONOMER.

Miscellaneous databases

PROiP38782.

Family and domain databases

InterProiIPR007018. Mediator_Med6.
IPR016612. Mediator_Med6_fun.
[Graphical view]
PANTHERiPTHR13104. PTHR13104. 2 hits.
PfamiPF04934. Med6. 1 hit.
[Graphical view]
PIRSFiPIRSF013286. MED6_fungi. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A transcriptional mediator protein that is required for activation of many RNA polymerase II promoters and is conserved from yeast to humans."
    Lee Y.C., Min S., Gim B.S., Kim Y.-J.
    Mol. Cell. Biol. 17:4622-4632(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "Yeast global transcriptional regulators Sin4 and Rgr1 are components of mediator complex/RNA polymerase II holoenzyme."
    Li Y., Bjoerklund S., Jiang Y.W., Kim Y.-J., Lane W.S., Stillman D.J., Kornberg R.D.
    Proc. Natl. Acad. Sci. U.S.A. 92:10864-10868(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: COMPONENT OF MEDIATOR COMPLEX.
  5. Cited for: FUNCTION.
  6. "Interplay of positive and negative regulators in transcription initiation by RNA polymerase II holoenzyme."
    Lee T.I., Wyrick J.J., Koh S.S., Jennings E.G., Gadbois E.L., Young R.A.
    Mol. Cell. Biol. 18:4455-4462(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SRB4.
  7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. Cited for: NOMENCLATURE.
  10. Cited for: TOPOLOGY OF THE MEDIATOR COMPLEX.
  11. "A conserved mediator hinge revealed in the structure of the MED7-MED21 (Med7-Srb7) heterodimer."
    Baumli S., Hoeppner S., Cramer P.
    J. Biol. Chem. 280:18171-18178(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SRB4 AND SRB7.
  12. "Preponderance of free mediator in the yeast Saccharomyces cerevisiae."
    Takagi Y., Chadick J.Z., Davis J.A., Asturias F.J.
    J. Biol. Chem. 280:31200-31207(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION OF THE MEDIATOR COMPLEX.
  13. "Mediator and TFIIH govern carboxyl-terminal domain-dependent transcription in yeast extracts."
    Nair D., Kim Y., Myers L.C.
    J. Biol. Chem. 280:33739-33748(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF THE MEDIATOR COMPLEX.
  14. "Mediator as a general transcription factor."
    Takagi Y., Kornberg R.D.
    J. Biol. Chem. 281:80-89(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF THE MEDIATOR COMPLEX.
  15. Cited for: INTERACTION WITH SRB4, FUNCTION OF THE MEDIATOR COMPLEX HEAD MODULE, ELECTRON MICROSCOPY OF THE MEDIATOR COMPLEX HEAD MODULE, INTERACTION OF THE MEDIATOR COMPLEX HEAD MODULE WITH RNA POLYMERASE II AND TFIIF.
  16. "Med19(Rox3) regulates intermodule interactions in the Saccharomyces cerevisiae mediator complex."
    Baidoobonso S.M., Guidi B.W., Myers L.C.
    J. Biol. Chem. 282:5551-5559(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION OF THE MEDIATOR COMPLEX, INTERACTION OF THE MEDIATOR COMPLEX WITH RNA POLYMERASE II.
  17. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
    Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
    Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  18. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-225, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  19. "Structure of the yeast RNA polymerase II holoenzyme: mediator conformation and polymerase interaction."
    Davis J.A., Takagi Y., Kornberg R.D., Asturias F.J.
    Mol. Cell 10:409-415(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: ELECTRON MICROSCOPY OF MEDIATOR COMPLEX IN COMPLEX WITH RNA POLYMERASE II.

Entry informationi

Entry nameiMED6_YEAST
AccessioniPrimary (citable) accession number: P38782
Secondary accession number(s): D3DL07
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: July 6, 2016
This is version 125 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 4824 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome VIII
    Yeast (Saccharomyces cerevisiae) chromosome VIII: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.