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Protein

Autophagy protein 16

Gene

ATG16

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

Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. The ATG5-ATG12/ATG16 complex is required for efficient promotion of ATG8-conjugation to phosphatidylethanolamine and ATG8 localization to the pre-autophagosomal structure (PAS). Recruites also ATG3 to the PAS. Involved in endoplasmic reticulum-specific autophagic process and is essential for the survival of cells subjected to severe ER stress.10 Publications

GO - Molecular functioni

  • identical protein binding Source: IntAct
  • protein binding, bridging Source: SGD

GO - Biological processi

  • autophagy Source: UniProtKB
  • C-terminal protein lipidation Source: SGD
  • CVT pathway Source: SGD
  • late nucleophagy Source: SGD
  • macroautophagy Source: SGD
  • mitochondrion degradation Source: SGD
  • piecemeal microautophagy of nucleus Source: SGD
Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-32849-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Autophagy protein 16
Alternative name(s):
Cytoplasm to vacuole targeting protein 11
SAP18 homolog
Gene namesi
Name:ATG16
Synonyms:APG15, APG16, CVT11, SAP18
Ordered Locus Names:YMR159C
ORF Names:YM8520.08C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XIII

Organism-specific databases

CYGDiYMR159c.
EuPathDBiFungiDB:YMR159C.
SGDiS000004769. ATG16.

Subcellular locationi

GO - Cellular componenti

  • Atg12-Atg5-Atg16 complex Source: SGD
  • pre-autophagosomal structure Source: SGD
  • pre-autophagosomal structure membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi35 – 351R → A: Impairs interaction with ATG5and autophagy. 1 Publication
Mutagenesisi46 – 461F → A: Impairs interaction with ATG5and autophagy. 1 Publication
Mutagenesisi101 – 1011D → A: Significantly reduces autophagic activity; when associated with A-102. 1 Publication
Mutagenesisi102 – 1021E → A: Significantly reduces autophagic activity; when associated with A-101. 1 Publication
Mutagenesisi104 – 1041I → A: Significantly reduces autophagic activity; when associated with A-108 and A-112. 1 Publication
Mutagenesisi108 – 1081I → A: Significantly reduces autophagic activity; when associated with A-104 and A-112. 1 Publication
Mutagenesisi112 – 1121V → A: Significantly reduces autophagic activity; when associated with A-104 and A-108. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 150150Autophagy protein 16PRO_0000218595Add
BLAST

Proteomic databases

PaxDbiQ03818.

Interactioni

Subunit structurei

Homodimer. Part of the 350 kDa complex which is at least composed of ATG5, ATG12 and ATG16. Several units of each may be present in this complex. Interacts directly with ATG12.6 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
itself4EBI-27344,EBI-27344
ATG12P3831611EBI-27344,EBI-2692
ATG5Q123805EBI-27344,EBI-2664
MEC3Q025743EBI-27344,EBI-10658

Protein-protein interaction databases

BioGridi35336. 40 interactions.
DIPiDIP-2144N.
IntActiQ03818. 8 interactions.
MINTiMINT-406657.
STRINGi4932.YMR159C.

Structurei

Secondary structure

1
150
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi23 – 4018Combined sources
Helixi43 – 453Combined sources
Turni48 – 514Combined sources
Helixi61 – 11757Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DYMX-ray2.20B/D/F/H1-46[»]
2DYOX-ray1.97B1-57[»]
3A7OX-ray2.50A/B/C/D/E/F50-123[»]
3A7PX-ray2.80A/B1-150[»]
3W1SX-ray2.60B1-46[»]
ProteinModelPortaliQ03818.
SMRiQ03818. Positions 22-57, 60-119.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ03818.

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili58 – 13073Sequence AnalysisAdd
BLAST

Sequence similaritiesi

Belongs to the ATG16 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiNOG83585.
HOGENOMiHOG000034134.
InParanoidiQ03818.
KOiK08340.
OrthoDBiEOG7K9KGP.

Family and domain databases

InterProiIPR013923. Autophagy-rel_prot_16.
[Graphical view]
PfamiPF08614. ATG16. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q03818-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGNFIITERK KAKEERSNPQ TDSMDDLLIR RLTDRNDKEA HLNELFQDNS
60 70 80 90 100
GAIGGNIVSH DDALLNTLAI LQKELKSKEQ EIRRLKEVIA LKNKNTERLN
110 120 130 140 150
DELISGTIEN NVLQQKLSDL KKEHSQLVAR WLKKTEKETE AMNSEIDGTK
Length:150
Mass (Da):17,222
Last modified:November 1, 1997 - v1
Checksum:i6D4308298D4DBB59
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49705 Genomic DNA. Translation: CAA89795.1.
BK006946 Genomic DNA. Translation: DAA10055.1.
PIRiS54517.
RefSeqiNP_013882.1. NM_001182663.1.

Genome annotation databases

EnsemblFungiiYMR159C; YMR159C; YMR159C.
GeneIDi855194.
KEGGisce:YMR159C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49705 Genomic DNA. Translation: CAA89795.1.
BK006946 Genomic DNA. Translation: DAA10055.1.
PIRiS54517.
RefSeqiNP_013882.1. NM_001182663.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DYMX-ray2.20B/D/F/H1-46[»]
2DYOX-ray1.97B1-57[»]
3A7OX-ray2.50A/B/C/D/E/F50-123[»]
3A7PX-ray2.80A/B1-150[»]
3W1SX-ray2.60B1-46[»]
ProteinModelPortaliQ03818.
SMRiQ03818. Positions 22-57, 60-119.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35336. 40 interactions.
DIPiDIP-2144N.
IntActiQ03818. 8 interactions.
MINTiMINT-406657.
STRINGi4932.YMR159C.

Proteomic databases

PaxDbiQ03818.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYMR159C; YMR159C; YMR159C.
GeneIDi855194.
KEGGisce:YMR159C.

Organism-specific databases

CYGDiYMR159c.
EuPathDBiFungiDB:YMR159C.
SGDiS000004769. ATG16.

Phylogenomic databases

eggNOGiNOG83585.
HOGENOMiHOG000034134.
InParanoidiQ03818.
KOiK08340.
OrthoDBiEOG7K9KGP.

Enzyme and pathway databases

BioCyciYEAST:G3O-32849-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ03818.
NextBioi978667.
PROiQ03818.

Family and domain databases

InterProiIPR013923. Autophagy-rel_prot_16.
[Graphical view]
PfamiPF08614. ATG16. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "Isolation and characterization of autophagy-defective mutants of Saccharomyces cerevisiae."
    Tsukada M., Ohsumi Y.
    FEBS Lett. 333:169-174(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  4. "Genetic and phenotypic overlap between autophagy and the cytoplasm to vacuole protein targeting pathway."
    Harding T.M., Hefner-Gravink A., Thumm M., Klionsky D.J.
    J. Biol. Chem. 271:17621-17624(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  5. "Apg16p is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway."
    Mizushima N., Noda T., Ohsumi Y.
    EMBO J. 18:3888-3896(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH ATG5 AND ATG12.
  6. "The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation."
    Suzuki K., Kirisako T., Kamada Y., Mizushima N., Noda T., Ohsumi Y.
    EMBO J. 20:5971-5981(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.
  7. "Formation of the approximately 350-kDa Apg12-Apg5.Apg16 multimeric complex, mediated by Apg16 oligomerization, is essential for autophagy in yeast."
    Kuma A., Mizushima N., Ishihara N., Ohsumi Y.
    J. Biol. Chem. 277:18619-18625(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, IDENTIFICATION IN THE COMPLEX.
  8. Cited for: NOMENCLATURE.
  9. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  10. "apg15-1, a UGA mutant allele in the Saccharomyces cerevisiae APG16 gene, and its suppression by a cytoplasmic factor."
    Okazaki H., Ono B., Ohsumi Y., Ohsumi M.
    Biosci. Biotechnol. Biochem. 68:1541-1548(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHENOTYPIC CHARACTERIZATION.
  11. "Structure-function relationship of Atg12, a ubiquitin-like modifier essential for autophagy."
    Hanada T., Ohsumi Y.
    Autophagy 1:110-118(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE ATG5-ATG12/ATG16 COMPLEX.
  12. "Starvation triggers the delivery of the endoplasmic reticulum to the vacuole via autophagy in yeast."
    Hamasaki M., Noda T., Baba M., Ohsumi Y.
    Traffic 6:56-65(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  13. "Autophagy counterbalances endoplasmic reticulum expansion during the unfolded protein response."
    Bernales S., McDonald K.L., Walter P.
    PLoS Biol. 4:E423-E423(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  14. "The Atg1 kinase complex is involved in the regulation of protein recruitment to initiate sequestering vesicle formation for nonspecific autophagy in Saccharomyces cerevisiae."
    Cheong H., Nair U., Geng J., Klionsky D.J.
    Mol. Biol. Cell 19:668-681(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  15. "Roles of the lipid-binding motifs of Atg18 and Atg21 in the cytoplasm to vacuole targeting pathway and autophagy."
    Nair U., Cao Y., Xie Z., Klionsky D.J.
    J. Biol. Chem. 285:11476-11488(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  16. Cited for: FUNCTION.
  17. "Mechanism and functions of membrane binding by the Atg5-Atg12/Atg16 complex during autophagosome formation."
    Romanov J., Walczak M., Ibiricu I., Schuchner S., Ogris E., Kraft C., Martens S.
    EMBO J. 31:4304-4317(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION OF THE ATG5-ATG2/ATG16 COMPLEX.
  18. "Structure of Atg5.Atg16, a complex essential for autophagy."
    Matsushita M., Suzuki N.N., Obara K., Fujioka Y., Ohsumi Y., Inagaki F.
    J. Biol. Chem. 282:6763-6772(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.97 ANGSTROMS) OF 1-57 IN COMPLEX WITH ATG5, MUTAGENESIS OF ARG-35 AND PHE-46, FUNCTION.
  19. "Dimeric coiled-coil structure of Saccharomyces cerevisiae Atg16 and its functional significance in autophagy."
    Fujioka Y., Noda N.N., Nakatogawa H., Ohsumi Y., Inagaki F.
    J. Biol. Chem. 285:1508-1515(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS), SUBUNIT, MUTAGENESIS OF ASP-101; GLU-102; ILE-104; ILE-108 AND VAL-112.
  20. "Structure of the Atg12-Atg5 conjugate reveals a platform for stimulating Atg8-PE conjugation."
    Noda N.N., Fujioka Y., Hanada T., Ohsumi Y., Inagaki F.
    EMBO Rep. 14:206-211(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) OF 1-46 IN COMPLEX WITH ATG5 AND ATG12.

Entry informationi

Entry nameiATG16_YEAST
AccessioniPrimary (citable) accession number: Q03818
Secondary accession number(s): D6VZY1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: June 24, 2015
This is version 114 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 573 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 XIII
    Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

External Data

Dasty 3

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 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.