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Protein

Autophagy protein 5

Gene

ATG5

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

Involved in cytoplasm to vacuole transport (Cvt) and autophagic vesicle formation. Autophagy is essential for maintenance of amino acid levels and protein synthesis under nitrogen starvation. Required for selective autophagic degradation of the nucleus (nucleophagy). Also required for mitophagy, which eliminates defective or superfluous mitochondria in order to fulfill cellular energy requirements and prevent excess ROS production. Conjugation with ATG12, through a ubiquitin-like conjugating system involving ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity. Plays a role in the regulation of filamentous growth and chronological longevity.17 Publications

GO - Molecular functioni

  • enzyme activator activity Source: SGD
  • hydrolase activity Source: UniProtKB-KW

GO - Biological processi

  • autophagosome assembly Source: GO_Central
  • cellular response to nitrogen starvation Source: GO_Central
  • C-terminal protein lipidation Source: SGD
  • CVT pathway Source: SGD
  • late nucleophagy Source: SGD
  • macroautophagy Source: SGD
  • mitophagy Source: SGD
  • piecemeal microautophagy of nucleus Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Autophagy, Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-34046-MONOMER.
ReactomeiR-SCE-1632852. Macroautophagy.

Names & Taxonomyi

Protein namesi
Recommended name:
Autophagy protein 5
Gene namesi
Name:ATG5
Synonyms:APG5
Ordered Locus Names:YPL149W
ORF Names:P2601
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPL149W.
SGDiS000006070. ATG5.

Subcellular locationi

GO - Cellular componenti

  • Atg12-Atg5-Atg16 complex Source: SGD
  • autophagosome Source: SGD
  • cytosol Source: SGD
  • membrane Source: SGD
  • pre-autophagosomal structure Source: SGD
  • pre-autophagosomal structure membrane Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi149K → R: Loss of conjugation. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002190101 – 294Autophagy protein 5Add BLAST294

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki149Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ATG12)

Post-translational modificationi

Conjugated to ATG12; which is essential for autophagy. Conjugation with ATG12 involves ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme.

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

MaxQBiQ12380.
PRIDEiQ12380.

Interactioni

Subunit structurei

Conjugated with ATG12. The ATG5-ATG12 conjugate forms a complex with several units of ATG16. The ATG12-ATG5 conjugate associates also with ATG3.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ATG12P3831610EBI-2664,EBI-2692
ATG16Q038185EBI-2664,EBI-27344

Protein-protein interaction databases

BioGridi36034. 55 interactors.
DIPiDIP-1195N.
IntActiQ12380. 8 interactors.
MINTiMINT-388341.

Structurei

Secondary structure

1294
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 9Combined sources9
Beta strandi12 – 19Combined sources8
Helixi21 – 23Combined sources3
Helixi30 – 33Combined sources4
Beta strandi34 – 43Combined sources10
Helixi45 – 48Combined sources4
Helixi49 – 56Combined sources8
Helixi57 – 59Combined sources3
Beta strandi60 – 62Combined sources3
Turni64 – 66Combined sources3
Beta strandi71 – 76Combined sources6
Beta strandi79 – 81Combined sources3
Beta strandi83 – 85Combined sources3
Helixi87 – 95Combined sources9
Helixi96 – 98Combined sources3
Turni105 – 107Combined sources3
Beta strandi115 – 125Combined sources11
Beta strandi136 – 138Combined sources3
Helixi139 – 156Combined sources18
Beta strandi157 – 159Combined sources3
Helixi160 – 163Combined sources4
Helixi167 – 179Combined sources13
Helixi182 – 192Combined sources11
Beta strandi202 – 205Combined sources4
Beta strandi208 – 212Combined sources5
Helixi230 – 232Combined sources3
Helixi233 – 236Combined sources4
Turni239 – 241Combined sources3
Beta strandi248 – 252Combined sources5
Beta strandi255 – 257Combined sources3
Helixi263 – 270Combined sources8
Beta strandi277 – 283Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2DYMX-ray2.20A/C/E/G1-294[»]
2DYOX-ray1.97A1-294[»]
3W1SX-ray2.60A1-284[»]
ProteinModelPortaliQ12380.
SMRiQ12380.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ12380.

Family & Domainsi

Sequence similaritiesi

Belongs to the ATG5 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000004766.
InParanoidiQ12380.
KOiK08339.
OMAiWNGSINV.
OrthoDBiEOG092C3XV6.

Family and domain databases

InterProiIPR007239. Atg5.
[Graphical view]
PANTHERiPTHR13040. PTHR13040. 1 hit.
PfamiPF04106. APG5. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q12380-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNDIKQLLWN GELNVLVSID PSFLMKGSPR EIAVLRIRVP RETYLVNYMP
60 70 80 90 100
LIWNKIKSFL SFDPLTDSEK YFWFEHNKTP IPWNYPVGVL FDCLAGKSAT
110 120 130 140 150
FTTSFENQVK DVLTFLRIHL VMGDSLPPTI IPIASSKTQA EKFWFHQWKQ
160 170 180 190 200
VCFILNGSSK AIMSLSVNEA RKFWGSVITR NFQDFIEISN KISSSRPRHI
210 220 230 240 250
PLIIQTSRTS GTFRISQPTI SMTGVNPTLK DIEGDILDVK EGINGNDVMV
260 270 280 290
ICQGIEIPWH MLLYDLYSKL RSFDGFLYIT LVPIKGGDKA SSEL
Length:294
Mass (Da):33,560
Last modified:November 1, 1996 - v1
Checksum:iBE513A631DEAA0A1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D83519 Genomic DNA. Translation: BAA11937.1.
X96770 Genomic DNA. Translation: CAA65572.1.
Z73505 Genomic DNA. Translation: CAA97854.1.
BK006949 Genomic DNA. Translation: DAA11286.1.
PIRiS65160.
RefSeqiNP_015176.1. NM_001183963.1.

Genome annotation databases

EnsemblFungiiYPL149W; YPL149W; YPL149W.
GeneIDi855954.
KEGGisce:YPL149W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D83519 Genomic DNA. Translation: BAA11937.1.
X96770 Genomic DNA. Translation: CAA65572.1.
Z73505 Genomic DNA. Translation: CAA97854.1.
BK006949 Genomic DNA. Translation: DAA11286.1.
PIRiS65160.
RefSeqiNP_015176.1. NM_001183963.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2DYMX-ray2.20A/C/E/G1-294[»]
2DYOX-ray1.97A1-294[»]
3W1SX-ray2.60A1-284[»]
ProteinModelPortaliQ12380.
SMRiQ12380.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36034. 55 interactors.
DIPiDIP-1195N.
IntActiQ12380. 8 interactors.
MINTiMINT-388341.

Proteomic databases

MaxQBiQ12380.
PRIDEiQ12380.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPL149W; YPL149W; YPL149W.
GeneIDi855954.
KEGGisce:YPL149W.

Organism-specific databases

EuPathDBiFungiDB:YPL149W.
SGDiS000006070. ATG5.

Phylogenomic databases

GeneTreeiENSGT00390000004766.
InParanoidiQ12380.
KOiK08339.
OMAiWNGSINV.
OrthoDBiEOG092C3XV6.

Enzyme and pathway databases

BioCyciYEAST:G3O-34046-MONOMER.
ReactomeiR-SCE-1632852. Macroautophagy.

Miscellaneous databases

EvolutionaryTraceiQ12380.
PROiQ12380.

Family and domain databases

InterProiIPR007239. Atg5.
[Graphical view]
PANTHERiPTHR13040. PTHR13040. 1 hit.
PfamiPF04106. APG5. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiATG5_YEAST
AccessioniPrimary (citable) accession number: Q12380
Secondary accession number(s): D6W3M0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 133 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 606 molecules/cell in log phase SD medium.1 Publication
Small amount of ATG5-ATG12 conjugate is enough to perform normal autophagy.

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 XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: 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.