FIG4 / YNL325C Overview
- Standard Name
- FIG4 1
- Systematic Name
- YNL325C
- SGD ID
- SGD:S000005269
- Feature Type
- ORF , Verified
- Description
- Phosphatidylinositol 3,5-bisphosphate (PtdIns[3,5]P) phosphatase; required for efficient mating and response to osmotic shock; physically associates with and regulated by Vac14p; contains a SAC1-like domain; homologous to human FIG4, which is associated with CMT4J, a form of Charcot-Marie-Tooth disorder 1 2 3 4 5
- Name Description
- Factor-Induced Gene 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
- FIG4 is located on the left arm of chromsome XIV near the telomere between replication origin ARS1405 and membrane protein LEM3; coding sequence is 2640 nucleotides long with 17 SNPs, and an in-frame 6-nucleotide ATGATG insertion in strains Y55, RM11-1a, and D273-10b toward the C-terminus; 3 of the 17 SNPs lead to 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
- Fig4p is 879 amino acids long, has a SAC domain, and is low in abundance; strains Y55, RM11-1a, and D273-10b have 2-amino acid insertion (Asp,Asp) at residue 807; phosphorylated on 3 serines
- Length (a.a.)
- 879
- Mol. Weight (Da)
- 101720.8
- Isoelectric Point
- 5.46
- Median Abundance (molecules/cell)
- 350 +/- 56
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 FIG4 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
- Phosphatidylinositol 3,5-bisphosphate 5-phosphatase subunit of PAS complex involved in phosphatidylinositol phosphate catabolism; localizes to vacuole membrane and nuclear periphery
View computational annotations
Molecular Function
- Manually Curated
Biological Process
- Manually Curated
- involved in phosphatidylinositol dephosphorylation (IGI, IDA)
Cellular Component
- Manually Curated
- located in fungal-type vacuole membrane (IDA)
- located in nuclear periphery (IDA)
- part of PAS complex (IPI, 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
- Non-essential gene; null shows very strong defect in vacuolar fragmentation, cannot use glutamate as nitrogen source, has increased cell size; increased resistance to acetic acid, nickel sulfate; decreased resistance to rapamycin, cycloheximide, paraquat, heavy metals; no invasive growth, decreased filamentous growth; homozygous null shows abnormal sporulation, increased heat sensitivity, decreased resistance to propanol, hygromycin, caffeine, cadmium, benomyl; heterozygous null is haploinsufficient
Classical Genetics
- null
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: normal
- mating efficiency: decreased
- mating projection morphology: abnormal
- metal resistance: decreased
- protein/peptide distribution: abnormal
- replicative lifespan: decreased
- resistance to chemicals: decreased
- vacuolar morphology: abnormal
- unspecified
- reduction of function
- null
- cell size: increased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- competitive fitness: decreased
- competitive fitness: increased
- filamentous growth: decreased
- haploinsufficient
- heat sensitivity: increased
- invasive growth: absent
- metal resistance: decreased
- oxidative stress resistance: decreased
- protein activity: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation: abnormal
- stress resistance: decreased
- toxin resistance: increased
- utilization of nitrogen source: decreased rate
- 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 FIG4 is homologous to human FIG4, and has been used to study Charcot-Marie-Tooth disease type 4J, amyotrophic lateral sclerosis type 11, Yunis-Varon syndrome, and bilateral parasagittal parieto-occipital polymicrogyria
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
- Fig4p interacts physically with proteins involved in RNA catabolism and translation; FIG4 interacts genetically with genes involved in transcription, mitosis, and protein catabolism
157 total interactions for 129 unique genes
Physical Interactions
- Affinity Capture-MS: 7
- Affinity Capture-RNA: 8
- Affinity Capture-Western: 9
- Reconstituted Complex: 2
- Two-hybrid: 1
Genetic Interactions
- Negative Genetic: 101
- Phenotypic Enhancement: 3
- Phenotypic Suppression: 3
- Positive Genetic: 16
- Synthetic Growth Defect: 4
- Synthetic Lethality: 1
- Synthetic Rescue: 2
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
- 5
- 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: 2008-06-26
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.