SET3/YKR029C Summary Help

Standard Name SET3 1
Systematic Name YKR029C
Feature Type ORF, Verified
Description Defining member of the SET3 histone deacetylase complex; which is a meiosis-specific repressor of sporulation genes; necessary for efficient transcription by RNAPII; one of two yeast proteins that contains both SET and PHD domains; SET3 has a paralog, SET4, that arose from the whole genome duplication (1, 2, 3, 4 and see Summary Paragraph)
Name Description SET domain-containing 5
Chromosomal Location
ChrXI:499833 to 497578 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Gene Ontology Annotations All SET3 GO evidence and references
  View Computational GO annotations for SET3
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
Regulators 1 genes
Classical genetics
Large-scale survey
397 total interaction(s) for 208 unique genes/features.
Physical Interactions
  • Affinity Capture-Luminescence: 2
  • Affinity Capture-MS: 37
  • Affinity Capture-Western: 11

Genetic Interactions
  • Negative Genetic: 184
  • Phenotypic Enhancement: 11
  • Phenotypic Suppression: 35
  • Positive Genetic: 53
  • Synthetic Growth Defect: 21
  • Synthetic Lethality: 26
  • Synthetic Rescue: 17

Expression Summary
Length (a.a.) 751
Molecular Weight (Da) 85,479
Isoelectric Point (pI) 9.12
Phosphorylation PhosphoGRID | PhosphoPep Database
sequence information
ChrXI:499833 to 497578 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Most Recent Updates
Coordinates Sequence
CDS 1..2256 499833..497578 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
External Links All Associated Seq | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000001737

Set3 is one of two proteins in yeast that, like Drosophila Trithorax, contains both SET and PHD domains (6). Set3p forms a complex called Set3C with Snt1p, Sif2p, cyclophilin Cpr1p, Hos2p, Hos4p, and Hst1p, that includes both NAD-dependent and NAD-independent histone deacetylase activities (7, 2). Set3C represses early/middle sporulation genes, including those encoding key meiotic regulators such as the IME2 protein kinase and the NDT80 transcription factor (1). Hst1p is also present in a complex with transcriptional repressor Sum1p. However, Hst1p is not required for meiotic repression by Set3C, suggesting that Set3C (without Hst1p) and not Hst1p-Sum1p, is the meiotic-specific repressor of early/middle sporulation genes (1).

Homology searches suggest that Set3C is the yeast analog of the mammalian HDAC3/SMRT complex (1).

Last updated: 2005-04-26 Contact SGD

References cited on this page View Complete Literature Guide for SET3
1) Pijnappel WW, et al.  (2001) The S. cerevisiae SET3 complex includes two histone deacetylases, Hos2 and Hst1, and is a meiotic-specific repressor of the sporulation gene program. Genes Dev 15(22):2991-3004
2) Wang A, et al.  (2002) Requirement of Hos2 histone deacetylase for gene activity in yeast. Science 298(5597):1412-4
3) Krogan NJ, et al.  (2003) Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II. Mol Cell Biol 23(12):4207-18
4) Byrne KP and Wolfe KH  (2005) The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res 15(10):1456-61
5) Nislow C, et al.  (1997) SET1, a yeast member of the trithorax family, functions in transcriptional silencing and diverse cellular processes. Mol Biol Cell 8(12):2421-36
6) Aasland R, et al.  (1995) The PHD finger: implications for chromatin-mediated transcriptional regulation. Trends Biochem Sci 20(2):56-9
7) Arevalo-Rodriguez M and Heitman J  (2005) Cyclophilin A is localized to the nucleus and controls meiosis in Saccharomyces cerevisiae. Eukaryot Cell 4(1):17-29