SEC4 / YFL005W Overview
- Standard Name
- SEC4 1 2
- Systematic Name
- YFL005W
- SGD ID
- SGD:S000001889
- Aliases
- SRO6
- Feature Type
- ORF , Verified
- Description
- Rab family GTPase; essential for vesicle-mediated exocytic secretion and autophagy; associates with the exocyst component Sec15p and may regulate polarized delivery of transport vesicles to the exocyst at the plasma membrane; exocyst association is negatively regulated via phosphorylation by Cdc5p during cytokinesis 3 5 6 7
- Name Description
- SECretory 4
- 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.
- Length (a.a.)
- 215
- Mol. Weight (Da)
- 23506.0
- Isoelectric Point
- 7.19
- Median Abundance (molecules/cell)
- 19002 +/- 7367
- Half-life (hr)
- 9.9
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 SEC4 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
- GTPase involved in Golgi to plasma membrane transport, vesicle fusion, and exocytosis; also involved in membrane addition at the site of cytokinesis, autophagy, and ascospore-type prospore assembly; localizes to the incipient bud site, mating projection tip, and transport vesicle
View computational annotations
Molecular Function
- Manually Curated
- enables GTP binding (IDA)
- enables GTPase activity (IDA)
Biological Process
- Manually Curated
- involved in ascospore-type prospore assembly (IMP)
- involved in autophagy (IGI, IMP)
- involved in exocytosis (IDA)
- involved in Golgi to plasma membrane transport (IMP)
- involved in membrane addition at site of cytokinesis (IMP, IGI)
- involved in vesicle fusion (IMP)
Cellular Component
- Manually Curated
- located in cellular bud neck (HDA)
- located in endoplasmic reticulum (HDA)
- located in incipient cellular bud site (IDA)
- located in mating projection tip (IDA)
- located in mitochondrial outer membrane (HDA)
- located in mitochondrion (HDA)
- located in plasma membrane (HDA)
- located in transport vesicle (IDA)
- located in vesicle (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
- Essential gene; conditional mutations cause defects in protein secretion, abnormal secretory vesicles and vacuolar morphology, decreased autophagy, abnormal budding and sporulation; overexpression results in slow growth
Classical Genetics
- conditional
- autophagy: decreased
- bipolar budding pattern: decreased
- bud neck morphology: abnormal
- chemical compound accumulation: decreased
- chitin deposition: abnormal
- cold sensitivity: increased
- endomembrane system morphology: abnormal
- heat sensitivity: increased
- intracellular transport: decreased
- mating projection morphology: abnormal
- protein secretion: absent
- protein secretion: decreased
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- sporulation: absent
- overexpression
- dominant negative
- null
- overexpression
- repressible
- reduction of function
- conditional
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 SEC4 is homologous to human RAB33B, and has been used to study Smith-McCort dysplasia and Dyggve-Melchior-Clausen disease
High-Throughput
- is_implicated_in Dyggve-Melchior-Clausen disease (IGI, ISS)
- is_implicated_in Smith-McCort dysplasia (IGI, ISS)
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.
551 total interactions for 293 unique genes
Physical Interactions
- Affinity Capture-MS: 60
- Affinity Capture-RNA: 3
- Affinity Capture-Western: 30
- Biochemical Activity: 11
- Co-crystal Structure: 4
- Co-fractionation: 2
- Co-localization: 1
- Co-purification: 3
- PCA: 16
- Proximity Label-MS: 3
- Reconstituted Complex: 18
- Two-hybrid: 21
Genetic Interactions
- Dosage Growth Defect: 4
- Dosage Lethality: 3
- Dosage Rescue: 45
- Negative Genetic: 230
- Phenotypic Enhancement: 4
- Phenotypic Suppression: 10
- Positive Genetic: 15
- Synthetic Growth Defect: 8
- Synthetic Haploinsufficiency: 2
- Synthetic Lethality: 54
- Synthetic Rescue: 4
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: 2010-05-13
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.