PIF1 / YML061C Overview
- Standard Name
- PIF1 1 2
- Systematic Name
- YML061C
- SGD ID
- SGD:S000004526
- Aliases
- TST1 10
- Feature Type
- ORF , Verified
- Description
- DNA helicase, potent G-quadruplex DNA binder/unwinder; possesses strand annealing activity; promotes DNA synthesis during break-induced replication; involved in crossover recombination; works with Hrq1p to maintain telomere length homeostasis; translation from different start sites produces mitochondrial (DNA repair and recombination) and nuclear (catalytic inhibitor of telomerase) isoforms; mutations affect Zn, Fe homeostasis; regulated by Rad53p-dependent phosphorylation in rho0 cells 1 3 4 5 6 7 8 9 10 11 12
- Name Description
- Petite Integration Frequency 2
- 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
- PIF1/YML061C is located on the left arm of chromosome XIII between MFT1 THO complex subunit and OGG1 nuclear and mitochondrial glycosylase/lyase; coding sequence is 2580 nucleotides long with 23 SNPs, 4 of which cause 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
- Pif1p is 859 amino acids long, low in abundance; acetylated on 6 lysines, sumoylated on 4 lysines, phosphorylated on 19 residues
- Length (a.a.)
- 859
- Mol. Weight (Da)
- 97697.2
- Isoelectric Point
- 9.59
- Median Abundance (molecules/cell)
- 1366 +/- 1105
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 PIF1 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
- DNA helicase and telomerase inhibitor; binds single-stranded DNA and G-quadruplex DNA; has multiple roles in chromosome organization including DNA strand renaturation, G-quadruplex DNA unwinding, and telomere maintenance; involved in DNA recombination, double-strand break repair via break-induced replication, and replication fork reversal; also involved in mitochondrial genome maintenance; localizes to the nucleus, replication fork, mitochondrion, and mitochondrial membrane
View computational annotations
Molecular Function
- Manually Curated
- enables centromeric DNA binding (IDA)
- enables DNA helicase activity (IDA)
- enables G-quadruplex DNA binding (IDA)
- enables single-stranded DNA binding (IDA)
- enables telomerase inhibitor activity (IDA, IMP)
- enables telomeric DNA binding (IDA)
Biological Process
- Manually Curated
- involved in chromosome organization (IMP)
- involved in DNA recombination (IMP)
- involved in DNA unwinding involved in DNA replication (IDA)
- involved in double-strand break repair via break-induced replication (IMP)
- involved in G-quadruplex DNA unwinding (IMP)
- involved in mitochondrial genome maintenance (IMP)
- involved in negative regulation of telomere maintenance via telomerase (IMP, IDA)
- involved in replication fork reversal (IGI)
- involved in telomere maintenance (IMP)
- involved in telomere maintenance via recombination (IGI)
- involved in translesion synthesis (IMP)
Cellular Component
- Manually Curated
- located in mitochondrial membrane (IDA)
- located in mitochondrion (HDA, IDA)
- is active in nuclear replication fork (IDA)
- located in replication fork (IDA)
- located in site of double-strand break (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
- Non-essential gene; null mutant shows elevated frequency of mutations and gross chromosomal rearrangements; null mutant accumulates more iron than wild type in mitochondria and cytoplasm, and more zinc in mitochondria; null mutant is sensitive to DNA damaging agents and oxidative stress but resistant to Zn++; inheritance of the mitochondrial genome is defective in the null mutant; in large-scale studies, null mutant shows respiratory growth defect, small cell size, reduced competitive fitness in a variety of different media, lengthened telomeres, and altered resistance to various chemicals
Classical Genetics
- null
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chromosome/plasmid maintenance: decreased
- metal resistance: increased
- mitochondrial genome maintenance: abnormal
- mitochondrial genome maintenance: absent
- mutation frequency: increased
- oxidative stress resistance: decreased
- petite
- protein activity: decreased
- respiratory growth: absent
- telomere length: increased
- overexpression
- reduction of function
- null
- cell size: decreased
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- heat sensitivity: increased
- innate thermotolerance: decreased
- mitochondrial morphology: abnormal
- mitophagy: increased
- mutation frequency: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: absent
- respiratory growth: decreased rate
- sporulation: abnormal
- starvation resistance: decreased
- stress resistance: increased
- telomere length: increased
- utilization of nitrogen source: decreased rate
- UV resistance: decreased
- vegetative growth: decreased rate
- viable
- overexpression
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.
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
- Pif1p interacts physically with proteins involved in DNA repair and DNA replication; PIF1 interacts genetically with genes involved in DNA repair
343 total interactions for 201 unique genes
Physical Interactions
- Affinity Capture-MS: 11
- Affinity Capture-RNA: 9
- Affinity Capture-Western: 8
- Biochemical Activity: 1
- Co-crystal Structure: 1
- Reconstituted Complex: 7
Genetic Interactions
- Dosage Growth Defect: 40
- Dosage Lethality: 5
- Dosage Rescue: 4
- Negative Genetic: 55
- Phenotypic Enhancement: 62
- Phenotypic Suppression: 40
- Positive Genetic: 6
- Synthetic Growth Defect: 28
- Synthetic Lethality: 24
- Synthetic Rescue: 42
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
- PIF1 promoter is bound by Yap5p in response to heat; PIF1 transcription is regulated by Sfp1p in response to stress; Pif1 protein activity is activated by Esa1p and deactivated by Rpd3p
- 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: 2024-07-05
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.