ATG5 / YPL149W Overview
- Standard Name
- ATG5 1
- Systematic Name
- YPL149W
- SGD ID
- SGD:S000006070
- Aliases
- APG5 2
- Feature Type
- ORF , Verified
- Description
- Conserved protein involved in autophagy and the Cvt pathway; undergoes conjugation with Atg12p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3 by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation; also involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner 2 3 4 5 6 7 8
- Name Description
- AuTophaGy related 1
- Comparative Info
-
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.
Analyze Sequence
S288C only
BLASTN | BLASTP | Design Primers | Restriction Fragment Map | Restriction Fragment Sizes | Six-Frame Translation
S288C vs. other species
BLASTN vs. fungi | BLASTP at NCBI | BLASTP vs. fungi
S288C vs. other strains
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.
- Summary
- Atg5p is 294 amino acids long, extremely low in abundance
- Length (a.a.)
- 294
- Mol. Weight (Da)
- 33563.3
- Isoelectric Point
- 8.77
- Median Abundance (molecules/cell)
- 648 +/- 356
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 ATG5 alleles in SGD search
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
- Contributes to Atg8 ligase activity (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 and mitochondrion degradation; localizes to the pre-autophagosomal structure (PAS)
View computational annotations
Molecular Function
- Manually Curated
- contributes to Atg8-family ligase activity (IDA)
- enables cargo receptor ligand activity (IDA)
- enables enzyme activator activity (IDA)
Biological Process
- Manually Curated
- involved in cellular response to potassium ion starvation (IMP)
- involved in cytoplasm to vacuole targeting by the Cvt pathway (IMP)
- involved in macroautophagy (IMP)
- involved in mitophagy (IMP)
- involved in nucleophagy (IMP)
- involved in piecemeal microautophagy of the nucleus (IMP)
Cellular Component
- Manually Curated
- part of Atg12-Atg5-Atg16 complex (IDA)
- located in autophagosome (IDA)
- located in cytosol (HDA, IDA)
- located in membrane (IDA)
- located in nucleus (HDA)
- located in phagophore (IDA)
- located in phagophore assembly site (IDA)
- located in vacuole-isolation membrane contact site (IDA)
Complex
Macromolecular complex annotations are imported from the Complex Portal. These annotations have been derived from physical molecular interaction evidence extracted from the literature and cross-referenced in the entry, or by curator inference from information on homologs in closely related species or by inference from scientific background.
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; reduction of function mutant is defective for autophagy and the CVT pathway; null mutant is unable to undergo both late nucleophagy and pexophagy, and displays reduced mitophagy and micronucleophagy; null mutant displays decreased viability during nitrogen starvation and abnormal nuclear morphology; null mutant displays a reduction in in the C-terminal modification of Atg8p and its localization to the pre-autophagosomal structure; null mutant has a reduction in chronological lifespan, and decreased resistance to desiccation and zinc treatment; homozygous diploid null mutant has a severe respiratory growth defect and is unable to sporulate; heterozygous diploid null is haploinsufficient
Classical Genetics
- reduction of function
- null
- autophagy: absent
- autophagy: decreased
- chemical compound accumulation: decreased
- inviable
- late nucleophagy: absent
- metal resistance: decreased
- mitophagy: decreased
- nuclear morphology: abnormal
- pexophagy: absent
- protein secretion: absent
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- sporulation: absent
- viability: decreased
- null
- chemical compound accumulation: abnormal
- chemical compound accumulation: increased
- chemical compound excretion: increased
- chronological lifespan: decreased
- chronological lifespan: increased
- competitive fitness: decreased
- desiccation resistance: decreased
- haploinsufficient
- resistance to chemicals: decreased
- respiratory growth: absent
- reticulophagy: decreased
- sporulation efficiency: decreased
- sporulation: decreased
- vacuolar morphology: abnormal
- viable
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast ATG5 is homologous to human ATG5, and has been used to study autosomal recessive spinocerebellar ataxia 25
Manually Curated
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.
- Summary
- Atg5p interacts physically with proteins involved in vacuole organization and protein targeting; ATG5 interacts genetically with genes involved in protein targeting
228 total interactions for 168 unique genes
Physical Interactions
- Affinity Capture-MS: 10
- Affinity Capture-RNA: 4
- Affinity Capture-Western: 8
- Biochemical Activity: 3
- Co-crystal Structure: 3
- Co-fractionation: 2
- Co-localization: 2
- Co-purification: 2
- PCA: 2
- Reconstituted Complex: 16
- Two-hybrid: 10
Genetic Interactions
- Negative Genetic: 129
- Phenotypic Enhancement: 3
- Phenotypic Suppression: 7
- Positive Genetic: 24
- Synthetic Haploinsufficiency: 1
- Synthetic Lethality: 2
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.
- Summary
- ATG5 promoter is bound by Rgr1p in response to heat
- Regulators
- 2
- Targets
- 0
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
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.