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Protein

Protein AF-9 homolog

Gene

YAF9

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

Functioni

Component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histones H4 and H2A. The NuA4 complex is also involved in DNA repair. Yaf9 may also be required for viability in conditions in which the structural integrity of the spindle is compromised.5 Publications

GO - Biological processi

  • chromatin remodeling Source: SGD
  • chromatin silencing at telomere Source: SGD
  • DNA repair Source: SGD
  • histone exchange Source: SGD
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator

Keywords - Biological processi

DNA damage, DNA repair, Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-33132-MONOMER.
BRENDAi2.3.1.48. 984.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein AF-9 homolog
Gene namesi
Name:YAF9
Ordered Locus Names:YNL107W
ORF Names:N1966
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNL107W.
SGDiS000005051. YAF9.

Subcellular locationi

GO - Cellular componenti

  • chromosome, telomeric region Source: GOC
  • cytoplasm Source: UniProtKB-SubCell
  • NuA4 histone acetyltransferase complex Source: SGD
  • Swr1 complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 226226Protein AF-9 homologPRO_0000215934Add
BLAST

Proteomic databases

MaxQBiP53930.

Interactioni

Subunit structurei

Component of the SWR1 chromatin-remodeling complex composed of at least ACT1, ARP4, RVB1, RVB2, ARP6, YAF9, VPS71, VPS72, SWC3, SWC4, SWC5, SWC7 and SWR1, and perhaps BDF1. Component of the NuA4 histone acetyltransferase complex composed of at least ACT1, ARP4, YAF9, VID21, SWC4, EAF3, EAF5, EAF6, EAF7, EPL1, ESA1, TRA1 and YNG2. Interacts with SWC4.7 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
BDF1P358173EBI-28841,EBI-3493
EAF1Q063372EBI-28841,EBI-35867
ESA1Q086496EBI-28841,EBI-6648
SWC4P532015EBI-28841,EBI-23061
TRA1P388114EBI-28841,EBI-24638

Protein-protein interaction databases

BioGridi35717. 385 interactions.
DIPiDIP-4347N.
IntActiP53930. 31 interactions.
MINTiMINT-515470.

Structurei

Secondary structure

1
226
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi8 – 114Combined sources
Beta strandi14 – 2613Combined sources
Beta strandi41 – 488Combined sources
Helixi50 – 523Combined sources
Turni56 – 583Combined sources
Beta strandi59 – 657Combined sources
Beta strandi70 – 723Combined sources
Beta strandi74 – 774Combined sources
Beta strandi79 – 9012Combined sources
Beta strandi93 – 1008Combined sources
Helixi102 – 1043Combined sources
Beta strandi109 – 1146Combined sources
Beta strandi145 – 15713Combined sources
Helixi160 – 1689Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3FK3X-ray2.30A/B/C8-169[»]
3RLSX-ray1.70A/B9-176[»]
ProteinModelPortaliP53930.
SMRiP53930. Positions 9-176.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53930.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini15 – 123109YEATSPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili187 – 22438Sequence analysisAdd
BLAST

Domaini

The coiled-coil domain is required for assembly into the NuA4 complex.

Sequence similaritiesi

Contains 1 YEATS domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00530000063543.
HOGENOMiHOG000190181.
InParanoidiP53930.
KOiK11341.
OMAiEHTHLWT.
OrthoDBiEOG7DVDQ1.

Family and domain databases

InterProiIPR005033. YEATS.
[Graphical view]
PANTHERiPTHR23195. PTHR23195. 1 hit.
PfamiPF03366. YEATS. 1 hit.
[Graphical view]
PROSITEiPS51037. YEATS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53930-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPTISKRIK TLSVSRPIIY GNTAKKMGSV KPPNAPAEHT HLWTIFVRGP
60 70 80 90 100
QNEDISYFIK KVVFKLHDTY PNPVRSIEAP PFELTETGWG EFDINIKVYF
110 120 130 140 150
VEEANEKVLN FYHRLRLHPY ANPVPNSDNG NEQNTTDHNS KDAEVSSVYF
160 170 180 190 200
DEIVFNEPNE EFFKILMSRP GNLLPSNKTD DCVYSKQLEQ EEIDRIEIGI
210 220
EKVDKEIDEL KQKLENLVKQ EAINGS
Length:226
Mass (Da):25,981
Last modified:October 1, 1996 - v1
Checksum:i1FE08F72942061D1
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti65 – 651K → R in AAT93068 (PubMed:17322287).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z69382 Genomic DNA. Translation: CAA93400.1.
Z71383 Genomic DNA. Translation: CAA95984.1.
AY693049 Genomic DNA. Translation: AAT93068.1.
BK006947 Genomic DNA. Translation: DAA10439.1.
PIRiS63048.
RefSeqiNP_014292.3. NM_001182945.3.

Genome annotation databases

EnsemblFungiiYNL107W; YNL107W; YNL107W.
GeneIDi855616.
KEGGisce:YNL107W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z69382 Genomic DNA. Translation: CAA93400.1.
Z71383 Genomic DNA. Translation: CAA95984.1.
AY693049 Genomic DNA. Translation: AAT93068.1.
BK006947 Genomic DNA. Translation: DAA10439.1.
PIRiS63048.
RefSeqiNP_014292.3. NM_001182945.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3FK3X-ray2.30A/B/C8-169[»]
3RLSX-ray1.70A/B9-176[»]
ProteinModelPortaliP53930.
SMRiP53930. Positions 9-176.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35717. 385 interactions.
DIPiDIP-4347N.
IntActiP53930. 31 interactions.
MINTiMINT-515470.

Proteomic databases

MaxQBiP53930.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNL107W; YNL107W; YNL107W.
GeneIDi855616.
KEGGisce:YNL107W.

Organism-specific databases

EuPathDBiFungiDB:YNL107W.
SGDiS000005051. YAF9.

Phylogenomic databases

GeneTreeiENSGT00530000063543.
HOGENOMiHOG000190181.
InParanoidiP53930.
KOiK11341.
OMAiEHTHLWT.
OrthoDBiEOG7DVDQ1.

Enzyme and pathway databases

BioCyciYEAST:G3O-33132-MONOMER.
BRENDAi2.3.1.48. 984.

Miscellaneous databases

EvolutionaryTraceiP53930.
PROiP53930.

Family and domain databases

InterProiIPR005033. YEATS.
[Graphical view]
PANTHERiPTHR23195. PTHR23195. 1 hit.
PfamiPF03366. YEATS. 1 hit.
[Graphical view]
PROSITEiPS51037. YEATS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The DNA sequence of cosmid 14-13b from chromosome XIV of Saccharomyces cerevisiae reveals an unusually high number of overlapping open reading frames."
    de Antoni A., D'Angelo M., Dal Pero F., Sartorello F., Pandolfo D., Pallavicini A., Lanfranchi G., Valle G.
    Yeast 13:261-266(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications."
    Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J.
    , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J.
    Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. Cited for: IDENTIFICATION IN THE SWR1 COMPLEX, FUNCTION OF THE SWR1 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  6. "Yaf9, a novel NuA4 histone acetyltransferase subunit, is required for the cellular response to spindle stress in yeast."
    Le Masson I., Yu D.Y., Jensen K., Chevalier A., Courbeyrette R., Boulard Y., Smith M.M., Mann C.
    Mol. Cell. Biol. 23:6086-6102(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, IDENTIFICATION IN THE NUA4 COMPLEX.
  7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. "Direct physical and functional interaction of the NuA4 complex components Yaf9p and Swc4p."
    Bittner C.B., Zeisig D.T., Zeisig B.B., Slany R.K.
    Eukaryot. Cell 3:976-983(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SWC4.
  10. "The Yaf9 component of the SWR1 and NuA4 complexes is required for proper gene expression, histone H4 acetylation, and Htz1 replacement near telomeres."
    Zhang H., Richardson D.O., Roberts D.N., Utley R.T., Erdjument-Bromage H., Tempst P., Cote J., Cairns B.R.
    Mol. Cell. Biol. 24:9424-9436(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, IDENTIFICATION IN THE NUA4 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  11. "A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin."
    Kobor M.S., Venkatasubrahmanyam S., Meneghini M.D., Gin J.W., Jennings J.L., Link A.J., Madhani H.D., Rine J.
    PLoS Biol. 2:587-599(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, IDENTIFICATION IN THE SWR1 COMPLEX, IDENTIFICATION IN THE NUA4 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  12. "Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4."
    Krogan N.J., Baetz K., Keogh M.-C., Datta N., Sawa C., Kwok T.C.Y., Thompson N.J., Davey M.G., Pootoolal J., Hughes T.R., Emili A., Buratowski S., Hieter P., Greenblatt J.F.
    Proc. Natl. Acad. Sci. U.S.A. 101:13513-13518(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE NUA4 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  13. "ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex."
    Mizuguchi G., Shen X., Landry J., Wu W.-H., Sen S., Wu C.
    Science 303:343-348(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE SWR1 COMPLEX, FUNCTION OF THE SWR1 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.

Entry informationi

Entry nameiAF9_YEAST
AccessioniPrimary (citable) accession number: P53930
Secondary accession number(s): D6W173, Q6B1N1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: July 6, 2016
This is version 131 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 259 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 XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: 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.