CTK1 / YKL139W Overview
- Standard Name
- CTK1 1
- Systematic Name
- YKL139W
- SGD ID
- SGD:S000001622
- Feature Type
- ORF , Verified
- Description
- Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; required for H3K36 trimethylation but not dimethylation by Set2p; suggested stimulatory role in 80S formation during translation initiation; similar to the Drosophila dCDK12 and human CDK12 and probably CDK13 1 2 3 4 5 6
- Name Description
- Carboxy-Terminal domain Kinase 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.
- Length (a.a.)
- 528
- Mol. Weight (Da)
- 60525.1
- Isoelectric Point
- 9.94
- Median Abundance (molecules/cell)
- 1879 +/- 900
- Half-life (min)
- 11.6
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 CTK1 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
- Cyclin-dependent protein serine/threonine kinase subunit of the CTDK-1 complex; involved in positive regulation of RNA pol I and II and transcription elongation; found in the nucleus
View computational annotations
Molecular Function
- Manually Curated
- enables cyclin-dependent protein serine/threonine kinase activity (IDA)
- enables protein kinase activity (HDA)
Biological Process
- Manually Curated
- involved in mRNA 3'-end processing (IMP, IGI)
- involved in positive regulation of DNA-templated transcription, elongation (IDA)
- involved in positive regulation of transcription by RNA polymerase I (IMP)
- involved in positive regulation of translational fidelity (IMP)
- involved in translational initiation (IMP)
Cellular Component
- Manually Curated
- part of CTDK-1 complex (IDA)
- located in nucleolus (IDA)
- located in nucleoplasm (IDA)
- located in nucleus (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 strain S288C, essential in Sigma1278b; null mutant is slow-growing and sensitive to cold, metal ions, and nucleoside analogs such as cordycepin and 6-azauracil; null mutant has abnormal nucleolar morphology and heterogeneous cell size; in large-scale studies, null mutant has reduced competitive fitness in several different media; homozygous null mutant diploid fails to sporulate; null mutant displays altered resistance to a wide variety of chemicals
Classical Genetics
- null
- cell size: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- cold sensitivity: increased
- metal resistance: decreased
- mitotic recombination: increased
- nucleolar morphology: abnormal
- protein/peptide accumulation: decreased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- stress resistance: decreased
- vegetative growth: decreased
- repressible
- overexpression
- null
- anaerobic growth: decreased
- budding pattern: abnormal
- cell shape: abnormal
- chemical compound accumulation: abnormal
- chemical compound accumulation: increased
- competitive fitness: decreased
- endocytosis: decreased
- haploinsufficient
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- inviable
- metal resistance: decreased
- oxidative stress resistance: decreased
- protein/peptide accumulation: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation: absent
- stress resistance: decreased
- telomere length: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of carbon source: decreased rate
- utilization of nitrogen source: decreased rate
- vacuolar morphology: abnormal
- vegetative growth: decreased rate
- viable
Large-scale Survey
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.
1208 total interactions for 898 unique genes
Physical Interactions
- Affinity Capture-MS: 66
- Affinity Capture-RNA: 9
- Affinity Capture-Western: 23
- Biochemical Activity: 10
- Co-crystal Structure: 2
- Co-localization: 2
- Co-purification: 2
- Far Western: 1
- PCA: 3
- Proximity Label-MS: 1
- Reconstituted Complex: 22
- Two-hybrid: 3
Genetic Interactions
- Dosage Growth Defect: 21
- Dosage Rescue: 1
- Negative Genetic: 653
- Phenotypic Enhancement: 19
- Phenotypic Suppression: 4
- Positive Genetic: 217
- Synthetic Growth Defect: 73
- Synthetic Lethality: 64
- Synthetic Rescue: 12
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: 2008-12-10
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.