CHD1 / YER164W Overview
- Standard Name
- CHD1 1
- Systematic Name
- YER164W
- SGD ID
- SGD:S000000966
- Feature Type
- ORF , Verified
- Description
- Chromatin remodeler that regulates various aspects of transcription; acts in conjunction with Isw1b to regulate chromatin structure, maintain chromatin integrity during transcription elongation by RNAP II by preventing trans-histone exchange over coding regions; component of both SAGA and SLIK complexes; ATPase motor stimulates DNA unwrapping from nucleosomes; contains two chromodomains, a helicase domain and a DNA-binding domain; human ortholog CHD1 is a prostate cancer tumor suppressor 1 2 3 4 5 6 7
- Name Description
- Chromatin organization modifier, Helicase, and DNA-binding domains 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.
- Summary
- Chd1p is 1468 amino acids long, low in abundance; contains disordered regions in both termini; sumoylated on 4 lysines, ubiquitinylated on K1144, phosphorylated on 44 residues
- Length (a.a.)
- 1468
- Mol. Weight (Da)
- 168226.0
- Isoelectric Point
- 6.46
- Median Abundance (molecules/cell)
- 3713 +/- 1150
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 CHD1 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
- ATP-dependent nucleosome remodeling factor involved in the regulation of chromatin organization and transcription by RNA polymerases I and II; subunit of both the SAGA and SLIK histone acetyltransferase complexes
View computational annotations
Molecular Function
- Manually Curated
- enables ATP-dependent activity, acting on DNA (IDA)
- enables ATP-dependent chromatin remodeler activity (IDA)
- enables chromatin DNA binding (IDA)
- enables DNA binding (IDA)
- enables methylated histone binding (IDA)
- enables rDNA binding (IDA)
- enables transcription cis-regulatory region binding (IDA)
Biological Process
- Manually Curated
- involved in chromatin remodeling (IDA)
- involved in DNA double-strand break processing (IMP)
- involved in double-strand break repair via homologous recombination (IMP)
- involved in negative regulation of DNA-templated DNA replication (IGI)
- involved in nucleosome organization (IMP)
- involved in regulation of chromatin organization (IMP)
- involved in regulation of transcriptional start site selection at RNA polymerase II promoter (IGI)
- involved in sister chromatid cohesion (IMP)
- involved in termination of RNA polymerase I transcription (IGI)
- involved in termination of RNA polymerase II transcription (IMP, IGI)
- involved in transcription elongation by RNA polymerase II (IPI, IGI)
Cellular Component
- Manually Curated
- located in chromatin (IDA)
- located in mitochondrion (HDA)
- located in nucleolar chromatin (IDA)
- part of SAGA complex (IDA)
- is active in site of double-strand break (IDA)
- part of SLIK (SAGA-like) complex (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.
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 displays decreased monoubiquitination of histone H2B and is unable to grow invasively; in large-scale studies null mutant shows decreased competitive fitness, desiccation resistance, and innate thermotolerance; null mutation also confers altered resistance to various chemicals and an originless fragment maintenance (Ofm) phenotype
Classical Genetics
- null
- chromosome/plasmid maintenance: decreased
- chronological lifespan: decreased
- heat sensitivity: normal
- metal resistance: decreased
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- replicative lifespan: increased
- resistance to chemicals: decreased
- viable
- unspecified
- null
- chromosome/plasmid maintenance: abnormal
- chronological lifespan: decreased
- chronological lifespan: increased
- competitive fitness: decreased
- competitive fitness: increased
- desiccation resistance: decreased
- haploproficient
- innate thermotolerance: decreased
- metal resistance: decreased
- protein/peptide accumulation: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: decreased
- stress resistance: increased
- toxin resistance: decreased
- vegetative growth: decreased rate
- viable
- unspecified
- overexpression
- reduction of function
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 CHD1 is homologous to human CHD1, and has been used to study prostate cancer; deletion of CHD1 results in reduced expression of cohesin, and subsequent increase in tumor aggressiveness
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.
- Summary
- Chd1p interacts physically with proteins involved in chromatin organization and transcription; CHD1 interacts genetically with genes involved in transcription and chromatin organization
854 total interactions for 533 unique genes
Physical Interactions
- Affinity Capture-MS: 167
- Affinity Capture-RNA: 9
- Affinity Capture-Western: 9
- Co-localization: 1
- Cross-Linking-MS (XL-MS): 1
- PCA: 2
- Protein-peptide: 1
- Proximity Label-MS: 1
- Reconstituted Complex: 17
- Two-hybrid: 4
Genetic Interactions
- Dosage Lethality: 1
- Dosage Rescue: 4
- Negative Genetic: 389
- Phenotypic Enhancement: 19
- Phenotypic Suppression: 8
- Positive Genetic: 148
- Synthetic Growth Defect: 45
- Synthetic Lethality: 8
- Synthetic Rescue: 20
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
- 6
- 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: 2024-11-07
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.