HRD1 / YOL013C Overview
- Standard Name
- HRD1 1
- Systematic Name
- YOL013C
- SGD ID
- SGD:S000005373
- Aliases
- DER3 2
- Feature Type
- ORF , Verified
- EC Number
- 2.3.2.27
- Description
- Ubiquitin-protein ligase involved in ER-associated degradation (ERAD) of misfolded proteins; upon autoubiquitination triggers retrotranslocation of misfolded proteins to cytosol for degradation; genetically linked to the unfolded protein response (UPR); regulated through association with Hrd3p; contains an H2 ring finger; likely plays a general role in targeting proteins that persistently associate with and potentially obstruct the ER-localized translocon 1 2 3 4 5 6 7 8 9
- Name Description
- HMG-coA Reductase Degradation 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
- HRD1/YOL013C is located on the left arm of chromosome XV between histone variant HTZ1 and YOL013W-A; coding sequence is 1656 nucleotides long with 8 synonymous and 5 nonsynonymous SNPs
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 | CGD Synteny Browser
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
- Hrd1p is 551 amino acids long and low in abundance; phosphorylated on 7 residues
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 HRD1 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
- Ubiquitin-protein transferase subunit of ERAD-M and ERAD-L complexes that recognizes and ubiquitinate proteins with misfolded domains during ER-associated protein degradation; also involved in cell wall organization and retrograde protein transport from the ER to cytosol
View computational annotations
Molecular Function
- Manually Curated
- enables ubiquitin-protein transferase activity (IDA, IGI, IMP)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in endoplasmic reticulum unfolded protein response (IMP)
- involved in ERAD pathway (IMP)
- involved in fungal-type cell wall organization (IGI)
- involved in protein autoubiquitination (IDA)
- involved in retrograde protein transport, ER to cytosol (IDA, IMP)
Cellular Component
- Manually Curated
- located in endoplasmic reticulum (IDA)
- located in endoplasmic reticulum membrane (IDA)
- part of Hrd1p ubiquitin ligase ERAD-L complex (IDA)
- part of Hrd1p ubiquitin ligase ERAD-M 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 in reference strain S288C; null mutant retains misfolded proteins in the ER, accumulates sterol esters and triglycerides, shows sensitivity to cadmium, lovastatin, cycloheximide; overexpression causes slow vegetative growth and increased invasive growth
Classical Genetics
- null
- reduction of function
- unspecified
- null
- 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.
- Summary
- Yeast HRD1 is homologous to human SYVN1, and has been used to study ERAD defects associated with increased risk of liver damages in alpha 1-antitrypsin deficiency
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
- Hrd1p interacts physically with proteins involved in response to chemical; HRD1 interacts genetically with genes involved in response to chemical
400 total interactions for 178 unique genes
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.
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: 2008-02-11
All Curated Literature
All manually curated literature for the specified gene, shown as a count of references by year of publication followed by the most recent papers. Click "Literature Details" or "See all" to view all literature information for this locus, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review).
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