SWI3/YJL176C Summary Help

Standard Name SWI3 1
Systematic Name YJL176C
Alias TYE2 2 , 3 , HAF2 4 , 5
Feature Type ORF, Verified
Description Subunit of the SWI/SNF chromatin remodeling complex; SWI/SNF regulates transcription by remodeling chromosomes; contains SANT domain that is required for SWI/SNF assembly; is essential for displacement of histone H2A-H2B dimers during ATP-dependent remodeling; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; relocates to the cytosol under hypoxic conditions (6, 7, 8, 9, 10 and see Summary Paragraph)
Name Description SWItching deficient 1
Chromosomal Location
ChrX:94530 to 92053 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Gbrowse
Gene Ontology Annotations All SWI3 GO evidence and references
  View Computational GO annotations for SWI3
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
Regulators 7 genes
Resources
Classical genetics
null
reduction of function
unspecified
Large-scale survey
null
overexpression
Resources
390 total interaction(s) for 287 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 71
  • Affinity Capture-RNA: 2
  • Affinity Capture-Western: 36
  • Co-crystal Structure: 1
  • Co-localization: 1
  • Co-purification: 6
  • PCA: 3
  • Reconstituted Complex: 13
  • Two-hybrid: 4

Genetic Interactions
  • Negative Genetic: 178
  • Positive Genetic: 57
  • Synthetic Growth Defect: 11
  • Synthetic Lethality: 7

Resources
Expression Summary
histogram
Resources
Length (a.a.) 825
Molecular Weight (Da) 92,926
Isoelectric Point (pI) 4.6
Localization
Phosphorylation PhosphoGRID | PhosphoPep Database
Structure
Homologs
sequence information
ChrX:94530 to 92053 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
SGD ORF map
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Relative
Coordinates
Chromosomal
Coordinates
Most Recent Updates
Coordinates Sequence
CDS 1..2478 94530..92053 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
Resources
External Links All Associated Seq | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000003712
SUMMARY PARAGRAPH for SWI3

Swi3p is a component of SWI/SNF, present at two copies per complex (7, 11, 12, 13). Swi3p is required for transcription of a diverse set of genes, including HO and Ty retrotransposons (14, 15, 16, 7, 17), and is also required for normal mating-type switching, recruitment of SWI/SNF to promoters by Gcn4p, and maintenance of the full structural integrity of the SWI/SNF complex (1, 18). Swi3p has two domains which are essential for its function, a SWIRM domain at residues 311-395 and a SANT domain at residues 527-576 (19, 20, 21). The steady-state level of Swi3p depends on functional Swi1p and Snf2p (7).

swi3 null mutants are viable but grow slowly on glucose, are inositol auxotrophs, and are unable to grow aerobically on maltose, galactose or raffinose (15, 7, 17). swi3 mutants are also defective in mating-type switching and sporulation, and display reduced growth at mild alkaline pH (1, 17, 22).

Swi3p is similar to Rsc8p and both are SWIRM domain proteins, which are predicted to mediate specific protein-protein interactions (23, 19). The eukaryotic SWIRM domain family also includes Schizosaccharomyces pombe Spac23e2.02p and Spbc146.09cp, Arabidopsis thaliana protein ATSWI3A, Drosophila MOR, and human SMARCC1, SMARCC2, MYSM1 and AOF2 (19). Swi3p is also similar to Arabidopsis thaliana AtSWI3B, Caenorhabditis elegans PSA-1 and PSA-4, and mouse SRG3 (24, 25, 26).

By regulating the structure of chromatin, chromatin remodeling complexes, all of which contain an ATPase as a central motor subunit, perform critical functions in the maintenance, transmission, and expression of eukaryotic genomes. The SWI/SNF chromatin remodeling complex is involved in DNA replication, stress response, and transcription, and binds DNA nonspecifically, altering nucleosome structure to facilitate binding of transcription factors. For some genes, transcriptional activators are able to target the SWI/SNF complex to upstream activation sequences (UAS) in the promoter. The SWI/SNF chromatin remodeling complex family contains two evolutionary conserved subclasses of chromatin remodeling factors, one subfamily includes yeast SWI/SNF, fly BAP, and mammalian BAF, and the other subfamily includes yeast RSC (Remodel the Structure of Chromatin), fly PBAP, and mammalian PBAF (23, 27, 6, 28, 29, 11, 30, 12, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 18, 42, 43, 44, 45, 46, 41, 47, 48, 49, 50, 51).

It appears that some human SWI/SNF subunits act as tumor suppressors and there is also evidence that human SWI/SNF subunits are involved in controlling cell growth via their interaction with other tumor suppressors (52). Expression of adenovirus E1A oncoproteins, which are regulators of cellular and viral transcription, in Saccharomyces cerevisiae requires the function of the SWI/SNF complex, and expression of E1A in wild-type cells leads to a specific loss of SWI/SNF dependent transcription. These results suggest that the SWI/SNF complex is a target of these oncoproteins in mammalian cells and that the disruption of normal cell cycle control by E1A may be due in part to altered activity of the SWI/SNF complex (53).

Last updated: 2006-03-24 Contact SGD

References cited on this page View Complete Literature Guide for SWI3
1) Stern M, et al.  (1984) Five SWI genes are required for expression of the HO gene in yeast. J Mol Biol 178(4):853-68
2) Lohning C, et al.  (1993) Isolation of the TYE2 gene reveals its identity to SWI3 encoding a general transcription factor in Saccharomyces cerevisiae. Curr Genet 24(3):193-9
3) Ciriacy M and Williamson VM  (1981) Analysis of mutations affecting Ty-mediated gene expression in Saccharomyces cerevisiae. Mol Gen Genet 182(1):159-63
4) Kuchin SV, et al.  (1993) Genes required for derepression of an extracellular glucoamylase gene, STA2, in the yeast Saccharomyces. Yeast 9(5):533-41
5) Kuchin S  (2009) HAF2 is allelic to SWI3 (Personal Communication to SGD)
6) Peterson CL, et al.  (1998) Subunits of the yeast SWI/SNF complex are members of the actin-related protein (ARP) family. J Biol Chem 273(37):23641-4
7) Peterson CL and Herskowitz I  (1992) Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription. Cell 68(3):573-83
8) Burns LG and Peterson CL  (1997) Protein complexes for remodeling chromatin. Biochim Biophys Acta 1350(2):159-68
9) Yang X, et al.  (2007) Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B displacement. Nat Struct Mol Biol 14(6):540-7
10) Ghosh Dastidar R, et al.  (2012) The nuclear localization of SWI/SNF proteins is subjected to oxygen regulation. Cell Biosci 2(1):30
11) Cairns BR, et al.  (1994) A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated from yeast. Proc Natl Acad Sci U S A 91(5):1950-4
12) Peterson CL, et al.  (1994) Five SWI/SNF gene products are components of a large multisubunit complex required for transcriptional enhancement. Proc Natl Acad Sci U S A 91(8):2905-8
13) Smith CL, et al.  (2003) Structural analysis of the yeast SWI/SNF chromatin remodeling complex. Nat Struct Biol 10(2):141-5
14) Breeden L and Nasmyth K  (1987) Cell cycle control of the yeast HO gene: cis- and trans-acting regulators. Cell 48(3):389-97
15) Peterson CL, et al.  (1991) A functional interaction between the C-terminal domain of RNA polymerase II and the negative regulator SIN1. Cell 64(6):1135-43
16) Hirschhorn JN, et al.  (1992) Evidence that SNF2/SWI2 and SNF5 activate transcription in yeast by altering chromatin structure. Genes Dev 6(12A):2288-98
17) Yoshinaga SK, et al.  (1992) Roles of SWI1, SWI2, and SWI3 proteins for transcriptional enhancement by steroid receptors. Science 258(5088):1598-604
18) Yoon S, et al.  (2003) Recruitment of SWI/SNF by Gcn4p does not require Snf2p or Gcn5p but depends strongly on SWI/SNF integrity, SRB mediator, and SAGA. Mol Cell Biol 23(23):8829-45
19) Aravind L and Iyer LM  (2002) The SWIRM domain: a conserved module found in chromosomal proteins points to novel chromatin-modifying activities. Genome Biol 3(8):RESEARCH0039
20) Boyer LA, et al.  (2002) Essential role for the SANT domain in the functioning of multiple chromatin remodeling enzymes. Mol Cell 10(4):935-42
21) Da G, et al.  (2006) Structure and function of the SWIRM domain, a conserved protein module found in chromatin regulatory complexes. Proc Natl Acad Sci U S A 103(7):2057-62
22) Cui M, et al.  (2004) lin-35/Rb cooperates with the SWI/SNF complex to control Caenorhabditis elegans larval development. Genetics 167(3):1177-85
23) Cairns BR, et al.  (1996) RSC, an essential, abundant chromatin-remodeling complex. Cell 87(7):1249-60
24) Sarnowski TJ, et al.  (2002) AtSWI3B, an Arabidopsis homolog of SWI3, a core subunit of yeast Swi/Snf chromatin remodeling complex, interacts with FCA, a regulator of flowering time. Nucleic Acids Res 30(15):3412-21
25) Sawa H, et al.  (2000) Components of the SWI/SNF complex are required for asymmetric cell division in C. elegans. Mol Cell 6(3):617-24
26) Jeon SH, et al.  (1997) A new mouse gene, SRG3, related to the SWI3 of Saccharomyces cerevisiae, is required for apoptosis induced by glucocorticoids in a thymoma cell line. J Exp Med 185(10):1827-36
27) Poch O and Winsor B  (1997) Who's who among the Saccharomyces cerevisiae actin-related proteins? A classification and nomenclature proposal for a large family. Yeast 13(11):1053-8
28) Harata M, et al.  (2000) Multiple actin-related proteins of Saccharomyces cerevisiae are present in the nucleus. J Biochem 128(4):665-71
29) Chervitz SA, et al.  (1998) Comparison of the complete protein sets of worm and yeast: orthology and divergence. Science 282(5396):2022-8
30) Cote J, et al.  (1994) Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex. Science 265(5168):53-60
31) Treich I, et al.  (1995) SNF11, a new component of the yeast SNF-SWI complex that interacts with a conserved region of SNF2. Mol Cell Biol 15(8):4240-8
32) Quinn J, et al.  (1996) DNA-binding properties of the yeast SWI/SNF complex. Nature 379(6568):844-7
33) Owen-Hughes T, et al.  (1996) Persistent site-specific remodeling of a nucleosome array by transient action of the SWI/SNF complex. Science 273(5274):513-6
34) Burns LG and Peterson CL  (1997) The yeast SWI-SNF complex facilitates binding of a transcriptional activator to nucleosomal sites in vivo. Mol Cell Biol 17(8):4811-9
35) Pollard KJ and Peterson CL  (1997) Role for ADA/GCN5 products in antagonizing chromatin-mediated transcriptional repression. Mol Cell Biol 17(11):6212-22
36) Utley RT, et al.  (1997) SWI/SNF stimulates the formation of disparate activator-nucleosome complexes but is partially redundant with cooperative binding. J Biol Chem 272(19):12642-9
37) Bazett-Jones DP, et al.  (1999) The SWI/SNF complex creates loop domains in DNA and polynucleosome arrays and can disrupt DNA-histone contacts within these domains. Mol Cell Biol 19(2):1470-8
38) Neely KE, et al.  (1999) Activation domain-mediated targeting of the SWI/SNF complex to promoters stimulates transcription from nucleosome arrays. Mol Cell 4(4):649-55
39) Natarajan K, et al.  (1999) Transcriptional activation by Gcn4p involves independent interactions with the SWI/SNF complex and the SRB/mediator. Mol Cell 4(4):657-64
40) Steger DJ, et al.  (2003) Regulation of chromatin remodeling by inositol polyphosphates. Science 299(5603):114-6
41) Prochasson P, et al.  (2003) Targeting activity is required for SWI/SNF function in vivo and is accomplished through two partially redundant activator-interaction domains. Mol Cell 12(4):983-90
42) Lemieux K and Gaudreau L  (2004) Targeting of Swi/Snf to the yeast GAL1 UAS G requires the Mediator, TAF IIs, and RNA polymerase II. EMBO J 23(20):4040-50
43) Ferreira ME, et al.  (2005) Mechanism of transcription factor recruitment by acidic activators. J Biol Chem 280(23):21779-84
44) Whitehouse I, et al.  (1999) Nucleosome mobilization catalysed by the yeast SWI/SNF complex. Nature 400(6746):784-7
45) Yudkovsky N, et al.  (1999) Recruitment of the SWI/SNF chromatin remodeling complex by transcriptional activators. Genes Dev 13(18):2369-74
46) Boyer LA, et al.  (2000) Roles of the histone H2A-H2B dimers and the (H3-H4)(2) tetramer in nucleosome remodeling by the SWI-SNF complex. J Biol Chem 275(16):11545-52
47) Logie C and Peterson CL  (1997) Catalytic activity of the yeast SWI/SNF complex on reconstituted nucleosome arrays. EMBO J 16(22):6772-82
48) Cote J, et al.  (1998) Perturbation of nucleosome core structure by the SWI/SNF complex persists after its detachment, enhancing subsequent transcription factor binding. Proc Natl Acad Sci U S A 95(9):4947-52
49) Cosma MP, et al.  (1999) Ordered recruitment of transcription and chromatin remodeling factors to a cell cycle- and developmentally regulated promoter. Cell 97(3):299-311
50) Flanagan JF and Peterson CL  (1999) A role for the yeast SWI/SNF complex in DNA replication. Nucleic Acids Res 27(9):2022-8
51) Ganster RW, et al.  (1998) Identification of a calcineurin-independent pathway required for sodium ion stress response in Saccharomyces cerevisiae. Genetics 150(1):31-42
52) Neely KE and Workman JL  (2002) The complexity of chromatin remodeling and its links to cancer. Biochim Biophys Acta 1603(1):19-29
53) Miller ME, et al.  (1996) Adenovirus E1A specifically blocks SWI/SNF-dependent transcriptional activation. Mol Cell Biol 16(10):5737-43