VHS3 / YOR054C Overview
- Standard Name
- VHS3 1
- Systematic Name
- YOR054C
- SGD ID
- SGD:S000005580
- Aliases
- YOR29-05
- Feature Type
- ORF , Verified
- Description
- Negative regulatory subunit of protein phosphatase 1 Ppz1p; involved in coenzyme A biosynthesis; subunit of the phosphopantothenoylcysteine decarboxylase (PPCDC; Cab3p, Sis2p, Vhs3p) complex and the CoA-Synthesizing Protein Complex (CoA-SPC: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p) 2 3 4 5
- Name Description
- Viable in a Hal3 Sit4 background 1
- Paralog
- SIS2
- 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.
- Summary
- VHS3/YOR054C is located on the right arm of chromosome XV between TMC1 zinc-finger protein and NOB1; coding sequence is 2025 nucleotides long with 50 SNPs, 11 of which cause amino acid polymorphisms
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
- Vhs3p is 674 amino acids long, shorter-lived, low in abundance; contains disordered regions throughout the protein and long variable repeat of dozens of Asp residues near C-terminus; phosphorylated on 33 residues
- Length (a.a.)
- 674
- Mol. Weight (Da)
- 73595.7
- Isoelectric Point
- 4.26
- Median Abundance (molecules/cell)
- 1413 +/- 1062
- Half-life (hr)
- 6.5
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 VHS3 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
- Regulatory subunit of protein phosphatase, subunit of phosphopantothenoylcysteine decarboxylase and CoA-synthesizing protein complexes; functions in coenzyme A biosynthesis; localized to cytoplasm
View computational annotations
Molecular Function
- Manually Curated
- contributes to phosphopantothenoylcysteine decarboxylase activity (IDA, IMP)
- enables protein phosphatase inhibitor activity (IDA)
Biological Process
- Manually Curated
- involved in coenzyme A biosynthetic process (IGI)
- involved in intracellular monoatomic cation homeostasis (IGI, IPI)
Cellular Component
- Manually Curated
- part of CoA-synthesizing protein complex (IDA)
- part of phosphopantothenoylcysteine decarboxylase complex (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
- VHS3/YOR054C is a non-essential gene; null mutant is viable, shows reduced fitness in competitive growth studies, decreased innate thermotolerance, increased resistance to tunicamycin and tacrolimus, and decreased resistance to carcinogen benzo[a]pyrene, insecticide toxaphene, and formaldehyde
- null
- chromosome/plasmid maintenance: decreased
- colony sectoring: increased
- competitive fitness: decreased
- competitive fitness: increased
- heat sensitivity: decreased
- hyperosmotic stress resistance: decreased
- innate thermotolerance: decreased
- metal resistance: decreased
- protein activity: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- 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 VHS3 is homologous to human PPCDC and has been used to study autosomal-recessive dilated cardiomyopathy
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
- Vhs3p interacts physically with proteins involved in regulation of transport; VHS3 interacts genetically with genes involved in transcription; the vhs3 null mutant is viable, the null mutant of paralog sis2 is viable, the vhs3 sis2 double mutant is inviable
250 total interactions for 193 unique genes
Physical Interactions
- Affinity Capture-MS: 15
- Affinity Capture-RNA: 5
- Affinity Capture-Western: 2
- Biochemical Activity: 8
- Co-localization: 1
- PCA: 11
- Reconstituted Complex: 5
- Two-hybrid: 1
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Rescue: 8
- Negative Genetic: 172
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 5
- Positive Genetic: 9
- Synthetic Growth Defect: 3
- Synthetic Lethality: 2
- Synthetic Rescue: 1
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
- 10
- 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: 2025-04-29
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.