YPT1 / YFL038C Overview
- Standard Name
- YPT1 1
- Systematic Name
- YFL038C
- SGD ID
- SGD:S000001856
- Aliases
- YP2 1
- Feature Type
- ORF , Verified
- Description
- Rab family GTPase; involved in the ER-to-Golgi step of the secretory pathway; complex formation with the Rab escort protein Mrs6p is required for prenylation of Ypt1p by type II protein geranylgeranyltransferase (Bet2p-Bet4p); binds to unspliced HAC1 mRNA; regulates the unfolded protein response (UPR) by promoting the decay of HAC1 RNA; localizes to the early Golgi, the transitional Golgi and ER membranes, pre-autophagosomal structures, and cytoplasmic vesicles 2 3 4 5
- Name Description
- Yeast Protein Two 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.
- Length (a.a.)
- 206
- Mol. Weight (Da)
- 23210.5
- Isoelectric Point
- 4.93
- Median Abundance (molecules/cell)
- 17705 +/- 8871
- Half-life (hr)
- 10.9
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 YPT1 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
- SNARE-binding GTPase involved in vesicle budding and docking, vesicle-mediated transport, endocytic recycling, macroautophagy, SNARE complex disassembly, and pre-mRNA catabolism; localizes to Golgi and ER membranes, pre-autophagosomal structures, and cytoplasmic vesicles
View computational annotations
Molecular Function
- Manually Curated
- enables GTPase activity (IDA)
- enables SNARE binding (IDA, IPI)
Biological Process
- Manually Curated
- involved in COPII-coated vesicle budding (IMP)
- involved in cytoplasm to vacuole targeting by the Cvt pathway (IMP)
- involved in early endosome to Golgi transport (IMP)
- involved in endocytic recycling (IMP)
- involved in endoplasmic reticulum to Golgi vesicle-mediated transport (IMP)
- involved in Golgi vesicle budding (IGI)
- involved in Golgi vesicle docking (IMP)
- involved in macroautophagy (IMP)
- involved in pre-mRNA catabolic process (IMP)
- involved in protein localization to phagophore assembly site (IMP)
- involved in regulation of endoplasmic reticulum unfolded protein response (IMP)
- involved in reticulophagy (IMP)
- involved in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum (IGI, IMP)
- involved in SNARE complex assembly (IDA)
- involved in SNARE complex disassembly (IMP)
Cellular Component
- Manually Curated
- located in cis-Golgi network (IDA)
- located in cytoplasmic vesicle (IDA)
- located in endoplasmic reticulum membrane (IDA)
- located in Golgi membrane (IDA)
- located in Golgi stack (IDA)
- located in mitochondrion (HDA)
- located in phagophore assembly site (IDA)
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
- Essential gene; conditional mutants are slow-growing, sensitive to both heat and cold, have fragmented DNA, abnormal ER morphology and aberrant microtubules, undergo cell cycle arrest, do not undergo autophagy, and are sensitive to nitrogen starvation, antibiotics and dopaminergic antagonists; reduction-of-function mutants display chromosome instability and decreased fitness; homozygous diploid conditional mutants fail to sporulate
Classical Genetics
- conditional
- actin cytoskeleton morphology: abnormal
- autophagy: absent
- cell cycle progression: decreased
- cold sensitivity: increased
- cytoskeleton morphology: abnormal
- endomembrane system morphology: abnormal
- endoplasmic reticulum morphology: abnormal
- growth in exponential phase: decreased rate
- heat sensitivity: increased
- nuclear morphology: abnormal
- nutrient uptake: increased
- protein secretion: abnormal
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- sporulation: absent
- starvation resistance: decreased
- vegetative growth: decreased rate
- repressible
- null
- overexpression
- reduction of function
- null
- overexpression
- reduction of function
- conditional
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 YPT1 is homologous to human RAB1A, and has been used to study colorectal cancer
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.
749 total interactions for 454 unique genes
Physical Interactions
- Affinity Capture-MS: 56
- Affinity Capture-RNA: 11
- Affinity Capture-Western: 34
- Biochemical Activity: 5
- Co-crystal Structure: 2
- Co-localization: 4
- Co-purification: 4
- FRET: 2
- PCA: 12
- Protein-RNA: 2
- Proximity Label-MS: 3
- Reconstituted Complex: 35
- Two-hybrid: 22
Genetic Interactions
- Dosage Growth Defect: 3
- Dosage Lethality: 6
- Dosage Rescue: 35
- Negative Genetic: 422
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 14
- Positive Genetic: 31
- Synthetic Growth Defect: 7
- Synthetic Lethality: 31
- Synthetic Rescue: 7
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.
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: 2010-05-18
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.