ATG3 / YNR007C Overview


Standard Name
ATG3 1
Systematic Name
YNR007C
SGD ID
SGD:S000005290
Aliases
AUT1 34 , APG3 2
Feature Type
ORF , Verified
Description
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 2 3 4 5 6
Name Description
AuTophaGy related 1
Comparative Info
Sequence Details

Sequence

The S. cerevisiae Reference Genome sequence is derived from laboratory strain S288C. Download DNA or protein sequence, view genomic context and coordinates. Click "Sequence Details" to view all sequence information for this locus, including that for other strains.


Protein Details

Protein

Basic sequence-derived (length, molecular weight, isoelectric point) and experimentally-determined (median abundance, median absolute deviation) protein information. Click "Protein Details" for further information about the protein such as half-life, abundance, domains, domains shared with other proteins, protein sequence retrieval for various strains, physico-chemical properties, protein modification sites, and external identifiers for the protein.


Length (a.a.)
310
Mol. Weight (Da)
35860.2
Isoelectric Point
4.29
Median Abundance (molecules/cell)
2150 +/- 513

Alleles

Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.


View all ATG3 alleles in SGD search

Gene Ontology Details

Gene Ontology

GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. SGD has manually curated and high-throughput GO Annotations, both derived from the literature, as well as computational, or predicted, annotations. Click "Gene Ontology Details" to view all GO information and evidence for this locus as well as biological processes it shares with other genes.


Summary
Atg8 ligase (conjugates Atg8p to phosphatidylethanolamine, PE); subunit of the Atg12-Atg5-Atg16 complex; involved in macroautophagy, cytoplasm-to-vacuole targeting (CVT) pathway, late nucleophagy, piecemeal microautophagy of nucleus, protein lipidation, autophagic vacuole assembly and mitochondrion degradation; localizes to the cytosol

View computational annotations

Molecular Function

Manually Curated

Biological Process

Manually Curated

Cellular Component

Manually Curated
Phenotype Details

Phenotype

Phenotype annotations for a gene are curated single mutant phenotypes that require an observable (e.g., "cell shape"), a qualifier (e.g., "abnormal"), a mutant type (e.g., null), strain background, and a reference. In addition, annotations are classified as classical genetics or high-throughput (e.g., large scale survey, systematic mutation set). Whenever possible, allele information and additional details are provided. Click "Phenotype Details" to view all phenotype annotations and evidence for this locus as well as phenotypes it shares with other genes.


Summary
Non-essential gene; null mutant is unable to undergo autophagy, late nucleophagy, the CVT pathway and displays decreased mitophagy and micronucleophagy; nitrogen starved null mutant has reduced viability, abnormal nuclear morphology, and is defective in degradation of total cellular protein; null mutant has decreased competitive fitness on various media; null mutant displays decreased chronological lifespan, reduced desiccation resistance and decreased resistance to zinc treatment; null mutant has increased biofilm formation; homozygous diploid null mutant displays greatly reduced sporulation and increased glycogen accumulation; overexpression results in decreased filamentous growth
Interaction Details

Interaction

Interaction annotations are curated by BioGRID and include physical or genetic interactions observed between at least two genes. An interaction annotation is composed of the interaction type, name of the interactor, assay type (e.g., Two-Hybrid), annotation type (e.g., manual or high-throughput), and a reference, as well as other experimental details. Click "Interaction Details" to view all interaction annotations and evidence for this locus, including an interaction visualization.


423 total interactions for 331 unique genes

Physical Interactions

  • Affinity Capture-MS: 10
  • Affinity Capture-RNA: 4
  • Affinity Capture-Western: 6
  • Biochemical Activity: 10
  • Co-crystal Structure: 2
  • Co-localization: 6
  • Co-purification: 1
  • Proximity Label-MS: 1
  • Reconstituted Complex: 22
  • Two-hybrid: 12

Genetic Interactions

  • Negative Genetic: 296
  • Phenotypic Enhancement: 3
  • Phenotypic Suppression: 3
  • Positive Genetic: 41
  • Synthetic Growth Defect: 5
  • Synthetic Rescue: 1
Regulation Details

Regulation

The number of putative Regulators (genes that regulate it) and Targets (genes it regulates) for the given locus, based on experimental evidence. This evidence includes data generated through high-throughput techniques. Click "Regulation Details" to view all regulation annotations, shared GO enrichment among regulation Targets, and a regulator/target diagram for the locus.


Regulators
1
Targets
0
Expression Details

Expression

Expression data are derived from records contained in the Gene Expression Omnibus (GEO), and are first log2 transformed and normalized. Referenced datasets may contain one or more condition(s), and as a result there may be a greater number of conditions than datasets represented in a single clickable histogram bar. The histogram division at 0.0 separates the down-regulated (green) conditions and datasets from those that are up-regulated (red). Click "Expression Details" to view all expression annotations and details for this locus, including a visualization of genes that share a similar expression pattern.


Summary Paragraph

A summary of the locus, written by SGD Biocurators following a thorough review of the literature. Links to gene names and curated GO terms are included within the Summary Paragraphs.


Last Updated: 2008-04-25

Literature Details

Literature

All manually curated literature for the specified gene, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review). Click "Literature Details" to view all literature information for this locus, including shared literature between genes.


Primary
57
Additional
58
Reviews
100

Resources