SER1 / YOR184W Overview


Standard Name
SER1 1 2
Systematic Name
YOR184W
SGD ID
SGD:S000005710
Aliases
ADE9 4
Feature Type
ORF , Verified
Description
3-phosphoserine aminotransferase; catalyzes the formation of phosphoserine from 3-phosphohydroxypyruvate, required for serine and glycine biosynthesis; regulated by the general control of amino acid biosynthesis mediated by Gcn4p; protein abundance increases in response to DNA replication stress 3 4 5 7
Name Description
SERine requiring 6
Comparative Info
Sequence Details

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
SER1 is located on the right arm of chromosome XV between uncharacterized gene FYV12 and H/ACA box snoRNA snR36; coding sequence is 1188 nucleotides long with 8 SNPs, 2 of which cause amino acid polymorphisms
Protein Details

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
Ser1p is 395 amino acids long, longer-lived, high in abundance; contains an aminotransferase class-V pyridoxal-phosphate binding site; ubiquitinylated on K122, succinylated on K58 and K122, phosphorylated on 4 residues; protein abundance increases in response to DNA replication stress
Length (a.a.)
395
Mol. Weight (Da)
43409.9
Isoelectric Point
6.52
Median Abundance (molecules/cell)
25177 +/- 8659
Half-life (hr)
11.3

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 SER1 alleles in SGD search

Gene Ontology Details

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 O-phospho-L-serine:2-oxoglutarate aminotransferase involved in serine and purine nuclease biosynthesis

View computational annotations

Molecular Function

Manually Curated

Biological Process

Manually Curated

Cellular Component

Manually Curated

Pathways


Phenotype Details

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 displays small defect in vacuolar fragmentation, decreased competitive fitness, increased cold sensitivity, slow growth, strong sensitivity to rapamycin, hypersensitivity to mycophenolic acid, increased sensitivity to anoxia, increased sensitivity to cadmium, increased sensitivity to benomyl, resistance to Calcofluor White
Disease Details

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 SER1 is homologous to human PSAT1 and has been used to study mutations implicated in serine deficiencies, from PSAT deficiency on the mild end to the more severe Neu-Laxova syndrome 2, characterized by multiple fatal malformations including ichthyosis, microcephaly, central nervous system abnormalities, limb deformities, intrauterine growth restriction, proptosis, anasarca, and micrognathia
Interaction Details

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
Ser1p interacts physically with proteins involved in translation regulation and organelle organization; SER1 interacts genetically with genes involved in transcription

424 total interactions for 325 unique genes

Physical Interactions

  • Affinity Capture-MS: 22
  • Affinity Capture-RNA: 6
  • Biochemical Activity: 1
  • Co-fractionation: 1
  • Co-purification: 1
  • PCA: 1
  • Proximity Label-MS: 1
  • Reconstituted Complex: 3
  • Two-hybrid: 1

Genetic Interactions

  • Dosage Rescue: 1
  • Negative Genetic: 307
  • Positive Genetic: 57
  • Synthetic Growth Defect: 9
  • Synthetic Lethality: 12
  • Synthetic Rescue: 1
Regulation Details

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.


Summary
SER1 promoter is bound by Fhl1p, Rfx1p, Rgr1p, and Xbp1p in response to heat; SER1 transcription is regulated by Sfp1p in response to stress; SER1 transcription is downregulated by Sir2p, Sir3p, and Sir4p during mitotic cell cycle
Regulators
11
Targets
0
Expression Details

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: 2024-05-22

Literature Details

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.


Primary
28
Additional
40
Reviews
4

Resources