SOD1 / YJR104C Overview
- Standard Name
- SOD1 1
- Systematic Name
- YJR104C
- SGD ID
- SGD:S000003865
- Aliases
- CRS4 27
- Feature Type
- ORF , Verified
- Description
- Cytosolic copper-zinc superoxide dismutase; also sulfide oxidase; detoxifies superoxide and hydrogen sulfide; stabilizes Yck1p and Yck2p kinases in glucose to repress respiration; phosphorylated by Dun1p, enters nucleus under oxidative stress to promote transcription of stress response genes; abundance increases under DNA replication stress; localization to mitochondrial intermembrane space is modulated by MICOS complex; human ortholog SOD1 implicated in ALS complements a null allele 2 3 4 5 6 7 8 9 11
- Name Description
- SuperOxide Dismutase 10
- 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
- Sod1p is 154 amino acids long, of shorter half-life, high in abundance; contains 2 copper/zinc binding domains; acetylated on 5 lysines, ubiquitinylated on 3 lysines, sumoylated on 2 lysines, succinylated on 6 lysines, phosphorylated on 17 residues
- Length (a.a.)
- 154
- Mol. Weight (Da)
- 15849.8
- Isoelectric Point
- 5.91
- Median Abundance (molecules/cell)
- 76043 +/- 43547
- Half-life (hr)
- 6.2
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 SOD1 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
- Superoxide dismutase involved in copper and zinc homeostasis, superoxide and hydrogen sulfide metabolism, cell aging, cell wall organization, regulation of cellular respiration, and regulation of transcription in response to oxidative stress; localized to the nucleus, cytosol, and mitochondrial intermembrane space
View computational annotations
Molecular Function
- Manually Curated
- enables oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor (IDA)
- enables superoxide dismutase activity (IDA)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in cellular detoxification (IMP)
- involved in cellular response to oxidative stress (IMP)
- involved in fungal-type cell wall organization (IMP)
- involved in intracellular copper ion homeostasis (IMP)
- involved in intracellular zinc ion homeostasis (IMP)
- involved in negative regulation of cellular respiration (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in protein stabilization (IMP, IPI)
- involved in superoxide metabolic process (IMP)
Cellular Component
- Manually Curated
- is active in cytosol (IDA)
- located in mitochondrial intermembrane space (IDA)
- located in mitochondrion (HDA)
- located in nucleus (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.
Pathways
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 requires lysine and methionine, displays a respiratory growth defect and decreased chronological and replicative lifespan, and is sensitive to a variety of environmental stresses including oxidative stress, desiccation, alkaline pH, and the presence of various chemicals; in large-scale studies the null mutant displays altered resistance to a variety of chemicals
Classical Genetics
- null
- alkaline pH resistance: decreased
- autophagy: decreased
- auxotrophy
- cell wall morphology: abnormal
- chemical compound accumulation: increased
- chemical compound excretion: decreased
- chromosome/plasmid maintenance: abnormal
- chronological lifespan: decreased
- desiccation resistance: decreased
- growth in exponential phase: decreased rate
- heat sensitivity: increased
- hydrostatic pressure resistance: decreased
- hyperosmotic stress resistance: decreased
- metal resistance: decreased
- mutation frequency: increased
- oxidative stress resistance: decreased
- prion formation: increased
- protein activity: decreased
- protein activity: increased
- protein/peptide accumulation: increased
- redox state: abnormal
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to chemicals: normal
- respiratory growth: absent
- RNA accumulation: decreased
- RNA accumulation: increased
- sporulation: decreased
- vacuolar morphology: abnormal
- viability: decreased
- overexpression
- misexpression
- unspecified
- repressible
- reduction of function
- null
- acid pH resistance: decreased
- alkaline pH resistance: decreased
- chemical compound accumulation: abnormal
- competitive fitness: decreased
- fermentative growth: decreased rate
- haploinsufficient
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- innate thermotolerance: decreased
- killer toxin resistance: decreased
- metal resistance: decreased
- mutation frequency: increased
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation efficiency: increased
- stress resistance: decreased
- toxin resistance: decreased
- utilization of nitrogen source: absent
- vacuolar morphology: abnormal
- vegetative growth: decreased
- vegetative growth: decreased rate
- 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 SOD1 is homologous to human SOD1, and has been used to study mutations found in patients with amyotrophic lateral sclerosis; >100 different mutations of SOD1 associated with ALS have been reported
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
- Sod1p interacts physically with proteins involved in translation regulation; SOD1 interacts genetically with genes involved in transcription
405 total interactions for 286 unique genes
Physical Interactions
- Affinity Capture-MS: 50
- Affinity Capture-RNA: 10
- Affinity Capture-Western: 5
- Biochemical Activity: 2
- Co-crystal Structure: 2
- Co-localization: 1
- Co-purification: 2
- PCA: 7
- Proximity Label-MS: 2
- Reconstituted Complex: 5
- Two-hybrid: 3
Genetic Interactions
- Dosage Growth Defect: 2
- Dosage Rescue: 11
- Negative Genetic: 113
- Phenotypic Enhancement: 31
- Phenotypic Suppression: 13
- Positive Genetic: 24
- Synthetic Growth Defect: 50
- Synthetic Lethality: 44
- Synthetic Rescue: 28
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
- 24
- 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: 2007-04-09
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.