TRP1 / YDR007W Overview
- Standard Name
- TRP1 1
- Systematic Name
- YDR007W
- SGD ID
- SGD:S000002414
- Feature Type
- ORF , Verified
- Description
- Phosphoribosylanthranilate isomerase; catalyzes the third step in tryptophan biosynthesis; in 2004, the sequence of TRP1 from strain S228C was updated by changing the previously annotated internal STOP (TAA) to serine (TCA); enhances vegetative growth at low and high temperatures when used as an auxotrophic marker in strains such as W303 2 3
- Name Description
- TRyPtophan 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.
- Summary
- TRP1 is located on the right arm of chromosome IV very close to the centromere between SOK1 signaling protein and replication origin ARS1; coding sequence is 675 nucleotides long with 3 SNPs, only 1 of which leads to an amino acid polymorphism; an in-frame 24-nucleotide deletion is shared by strains W303 and JK9-3d
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
- Trp1p is 224 amino acids long, somewhat long-lived, and low in abundance; strains W303 and JK9-3d share an 8-amino acid deletion VFRNQPKE at residues 76 to 84
- Length (a.a.)
- 224
- Mol. Weight (Da)
- 24139.7
- Isoelectric Point
- 5.08
- Median Abundance (molecules/cell)
- 2532 +/- 682
- Half-life (hr)
- 13.7
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 TRP1 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
- Cytoplasmic phosphoribosylanthranilate isomerase involved in tryptophan biosynthesis
View computational annotations
Molecular Function
- Manually Curated
- enables phosphoribosylanthranilate isomerase activity (IMP, IDA)
Biological Process
- Manually Curated
- involved in tryptophan biosynthetic process (IMP, IDA)
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 mutation causes tryptophan auxotrophy and increased cold sensitivity; null mutant is also sensitive to gamma rays, acetate, cisplatin, daunorubicin, and shows decreased competitive fitness in systematic studies
Classical Genetics
- null
- overexpression
- unspecified
- reduction of function
- null
- alkaline pH resistance: decreased
- chronological lifespan: increased
- cold sensitivity: increased
- competitive fitness: decreased
- hydrostatic pressure resistance: decreased
- hyperosmotic stress resistance: decreased
- innate thermotolerance: increased
- protein activity: increased
- resistance to chemicals: decreased
- vegetative growth: decreased rate
- viable
Large-scale Survey
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
- Interacts physically with proteins involved in translation regulation and RNA catabolism; interacts genetically with genes involved in mitosis and transcription
137 total interactions for 118 unique genes
Physical Interactions
- Affinity Capture-MS: 3
- Affinity Capture-RNA: 5
- Biochemical Activity: 4
- Co-purification: 1
Genetic Interactions
- Dosage Rescue: 13
- Negative Genetic: 79
- Phenotypic Enhancement: 2
- Phenotypic Suppression: 7
- Positive Genetic: 8
- Synthetic Growth Defect: 11
- Synthetic Rescue: 4
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
- 3
- 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: 2000-01-20
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.