VPS35 / YJL154C Overview
- Standard Name
- VPS35 1 2 3
- Systematic Name
- YJL154C
- SGD ID
- SGD:S000003690
- Aliases
- GRD9 6 , VPT7 10 , ENV1 11
- Feature Type
- ORF , Verified
- Description
- Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant 4 5 6 7 8 9
- Name Description
- Vacuolar Protein Sorting 2 3
- 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.
- Length (a.a.)
- 944
- Mol. Weight (Da)
- 109126.3
- Isoelectric Point
- 6.22
- Median Abundance (molecules/cell)
- 4037 +/- 778
- Half-life (hr)
- 9.6
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 VPS35 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
- Endosomal retromer complex subunit involved in retrograde transport of membrane-bounded vesicles from endosomes back to the trans-Golgi network where they are recycled for further rounds of transport
View computational annotations
Molecular Function
- Manually Curated
- contributes to cargo adaptor activity (IPI, IMP)
Biological Process
- Manually Curated
- involved in protein retention in Golgi apparatus (IMP)
- involved in retrograde transport, endosome to Golgi (IPI)
Cellular Component
- Manually Curated
- located in endosome (IPI)
- located in fungal-type vacuole membrane (IDA)
- part of retromer complex (IMP)
- part of retromer, cargo-selective complex (IPI)
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; null mutant displays chromosome instability, reduced respiratory growth and autophagy, sensitivity to Cd2+, and resistance to Ni2+; mutant accumulates abnormal membrane stacks; in large-scale studies, null mutant shows reduced competitive fitness in several different media, shorter chronological lifespan, abnormal lipid particle morphology, sensitivity to heat and desiccation, and altered resistance to a variety of chemicals
Classical Genetics
- reduction of function
- null
- autophagy: decreased
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- colony sectoring: increased
- metal resistance: decreased
- metal resistance: increased
- metal resistance: normal
- protein transport: abnormal
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- respiratory growth: decreased
- vacuolar morphology: abnormal
- overexpression
- null
- anaerobic growth: decreased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chemical compound excretion: increased
- chitin deposition: normal
- chronological lifespan: decreased
- chronological lifespan: increased
- competitive fitness: decreased
- desiccation resistance: decreased
- endocytosis: decreased
- heat sensitivity: increased
- lipid particle morphology: abnormal
- metal resistance: decreased
- oxidative stress resistance: decreased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- reticulophagy: decreased
- stress resistance: decreased
- toxin resistance: decreased
- utilization of nitrogen source: decreased rate
- vacuolar morphology: abnormal
- vegetative growth: 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 VPS35 is homologous to human VPS35, and has been used to study Parkinson's disease
Manually Curated
- Parkinson's disease (ISS, IGI, IMP)
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.
742 total interactions for 446 unique genes
Physical Interactions
- Affinity Capture-MS: 38
- Affinity Capture-RNA: 7
- Affinity Capture-Western: 34
- Co-fractionation: 5
- Co-purification: 6
- PCA: 15
- Proximity Label-MS: 5
- Reconstituted Complex: 6
- Two-hybrid: 6
Genetic Interactions
- Dosage Rescue: 4
- Negative Genetic: 476
- Phenotypic Enhancement: 5
- Phenotypic Suppression: 5
- Positive Genetic: 78
- Synthetic Growth Defect: 37
- Synthetic Lethality: 12
- Synthetic Rescue: 3
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
- 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.
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.