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ATG3 Atg3p [ Saccharomyces cerevisiae S288C ]

Gene ID: 855741, updated on 19-Nov-2025
Official Symbol
ATG3
Official Full Name
Atg3p
Primary source
SGD:S000005290
Locus tag
YNR007C
See related
AllianceGenome:SGD:S000005290; FungiDB:YNR007C; VEuPathDB:YNR007C
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as
APG3; AUT1
Summary
Enables Atg8-family ligase activity. Involved in several processes, including C-terminal protein lipidation; cytoplasm to vacuole targeting by the Cvt pathway; and macroautophagy. Located in phagophore and phagophore assembly site. Orthologous to human ATG3 (autophagy related 3). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs
all
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See ATG3 in Genome Data Viewer
Location:
chromosome: XIV
Exon count:
1
Sequence:
Chromosome: XIV; NC_001146.8 (639182..640114, complement)

Chromosome XIV - NC_001146.8Genomic Context describing neighboring genes Neighboring gene Swm2p Neighboring gene ESCRT-0 subunit protein VPS27 Neighboring gene phospholipid:diacylglycerol acyltransferase Neighboring gene Nrm1p

Genomic Sequence:
NC_001146.8

Go to nucleotide: Graphics FASTA GenBank

Related articles in PubMed

  1. AUT1, a gene essential for autophagocytosis in the yeast Saccharomyces cerevisiae. Schlumpberger M, et al. J Bacteriol, 1997 Feb. PMID 9023185, Free PMC Article
  2. Identification of Atg3 as an intrinsically disordered polypeptide yields insights into the molecular dynamics of autophagy-related proteins in yeast. Popelka H, et al. Autophagy, 2014 Jun. PMID 24879155, Free PMC Article
  3. Autophagy gene overexpression in Saccharomyces cerevisiae perturbs subcellular organellar function and accumulates ROS to accelerate cell death with relevance to sparkling wine production. Preiss R, et al. Appl Microbiol Biotechnol, 2018 Oct. PMID 30120525
  4. A semisynthetic Atg3 reveals that acetylation promotes Atg3 membrane binding and Atg8 lipidation. Li YT, et al. Nat Commun, 2017 Mar 22. PMID 28327644, Free PMC Article
  5. The breakdown of autophagic vesicles inside the vacuole depends on Aut4p. Suriapranata I, et al. J Cell Sci, 2000 Nov. PMID 11058089

See all (102) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Atg3 promotes Atg8 lipidation via altering lipid diffusion and rearrangement.
    Title: Atg3 promotes Atg8 lipidation via altering lipid diffusion and rearrangement.
  2. Atg3 is localized to autophagic structures in Saccharomyces cerevisiae.
    Title: Visualization of Atg3 during autophagosome formation in Saccharomyces cerevisiae.
  3. Atg3 is an intrinsically disordered polypeptide and the disorder/order predicted for this protein from its amino acid sequence corresponds to the experimental characteristics
    Title: Identification of Atg3 as an intrinsically disordered polypeptide yields insights into the molecular dynamics of autophagy-related proteins in yeast.
  4. Atg3 facilitates cell membrane expansion by ensuring active production of Atg8-PE on the membranes.
    Title: Localization of Atg3 to autophagy-related membranes and its enhancement by the Atg8-family interacting motif to promote expansion of the membranes.
  5. Atg12-Atg5 induces a reorientation of the cysteine residue toward the threonine residue, which enhances the conjugase activity of Atg3
    Title: Atg12-Atg5 conjugate enhances E2 activity of Atg3 by rearranging its catalytic site.
  6. Autophagic E2 enzymes Atg3 and Atg10 possess insertion regions in the middle of the core fold and may be involved in protein function.
    Title: Structure of the autophagic E2 enzyme Atg10.
  7. identified Esa1 as a histone acetyltransferase required for autophagy; identified Atg3 as a substrate for Esa1; acetylation of K19 and K48 of Atg3 regulated autophagy by controlling Atg3 and Atg8 interaction and lipidation of Atg8
    Title: Function and molecular mechanism of acetylation in autophagy regulation.
  8. Autophagy-related protein 8 (Atg8) family interacting motif in Atg3 mediates the Atg3-Atg8 interaction and is crucial for the cytoplasm-to-vacuole targeting pathway.
    Title: Autophagy-related protein 8 (Atg8) family interacting motif in Atg3 mediates the Atg3-Atg8 interaction and is crucial for the cytoplasm-to-vacuole targeting pathway.
  9. The amino-terminal region of Atg3 is essential for association with phosphatidylethanolamine in Atg8 lipidation.
    Title: The amino-terminal region of Atg3 is essential for association with phosphatidylethanolamine in Atg8 lipidation.
  10. the crystallographic structure of Atg3 provides a molecular basis for understanding the unique lipidation reaction that Atg3 carries out
    Title: The crystal structure of Atg3, an autophagy-related ubiquitin carrier protein (E2) enzyme that mediates Atg8 lipidation.
Submit: New GeneRIF Correction
Products Interactant Other Gene Complex Source Pubs Description

Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables Atg8-family conjugating enzyme activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables Atg8-family ligase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin-like protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in C-terminal protein lipidation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in C-terminal protein lipidation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in autophagy of mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in autophagy of mitochondrion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cytoplasm to vacuole targeting by the Cvt pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in glycophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nucleophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nucleophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in piecemeal microautophagy of the nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein targeting to membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm HDA PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol HDA PubMed 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrion IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrion IEA
Inferred from Electronic Annotation
more info
  
located_in phagophore IDA
Inferred from Direct Assay
more info
 PubMed 
located_in phagophore IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in phagophore assembly site IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in phagophore assembly site IDA
Inferred from Direct Assay
more info
 PubMed 
Preferred Names
Atg3p
NP_014404.3
  • E2-like enzyme; involved in autophagy and cytoplasm-to-vacuole targeting (Cvt) pathway; plays a role in formation of Atg8p-phosphatidylethanolamine conjugates, which are involved in membrane dynamics during autophagy and Cvt; interaction with Atg8p regulated by acetylation by NuA4 histone acetyltransferase Esa1p while attenuation of Atg3 acetylation is mediated by histone deacetylase Rpd3p; Atg12p-Atg5p conjugate enhances E2 activity of Atg3p by rearranging its catalytic site

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_001146.8 Reference assembly

    Range
    639182..640114 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001183184.3 → NP_014404.3  TPA: Atg3p

    See identical proteins and their annotated locations for NP_014404.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A6ZS81, D6W1I2, P40344
    UniProtKB/TrEMBL
    B3LPN3, B5VR38, C7GLP8, C8ZFN4, G2WL64, N1NY52
    Conserved Domains (2) summary
    pfam03986
    Location:2 → 141
    Autophagy_N; Autophagocytosis associated protein (Atg3), N-terminal domain
    pfam03987
    Location:32 → 305
    Autophagy_act_C; Autophagocytosis associated protein, active-site domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P40344.1

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