SNF5/YBR289W Summary Help

Standard Name SNF5 1
Systematic Name YBR289W
Alias HAF4 2 , SWI10 3 , TYE4 4 , 5
Feature Type ORF, Verified
Description Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf6p; relocates to the cytosol under hypoxic conditions (6, 7, 8 and see Summary Paragraph)
Name Description Sucrose NonFermenting 9
Chromosomal Location
ChrII:779667 to 782384 | ORF Map | GBrowse
Gbrowse
Gene Ontology Annotations All SNF5 GO evidence and references
  View Computational GO annotations for SNF5
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
Regulators 3 genes
Resources
Classical genetics
null
reduction of function
Large-scale survey
null
overexpression
Resources
249 total interaction(s) for 158 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 52
  • Affinity Capture-RNA: 2
  • Affinity Capture-Western: 30
  • Co-crystal Structure: 1
  • Co-localization: 2
  • Co-purification: 5
  • PCA: 1
  • Reconstituted Complex: 8
  • Two-hybrid: 3

Genetic Interactions
  • Dosage Growth Defect: 2
  • Dosage Lethality: 1
  • Dosage Rescue: 1
  • Negative Genetic: 81
  • Phenotypic Suppression: 2
  • Positive Genetic: 34
  • Synthetic Growth Defect: 14
  • Synthetic Lethality: 8
  • Synthetic Rescue: 2

Resources
Expression Summary
histogram
Resources
Length (a.a.) 905
Molecular Weight (Da) 102,542
Isoelectric Point (pI) 8.49
Localization
Phosphorylation PhosphoGRID | PhosphoPep Database
Structure
Homologs
sequence information
ChrII:779667 to 782384 | ORF Map | GBrowse
SGD ORF map
Last Update Coordinates: 2011-02-03 | Sequence: 2011-02-03
Subfeature details
Relative
Coordinates
Chromosomal
Coordinates
Most Recent Updates
Coordinates Sequence
CDS 1..2718 779667..782384 2011-02-03 2011-02-03
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 SGDIDS000000493
SUMMARY PARAGRAPH for SNF5

Snf5p is a component of the SWI/SNF complex (10, 11, 12) that affects chromatin structure and transcription from a variety of promoters (13, 3, 14, 15, 16, 17, 18). Snf5p is important for the assembly of the SWI/SNF complex and also for its nucleosome-remodeling activities, and may be involved in the negative regulation of chromatin silencing (19, 20). Snf5p is required for the normal expression of all histone genes, including HTA1 and HTB1 (21). Hir1p and Hir2p bind Snf5p and appear to target it, and presumably the SWI/SNF complex, to the HTA1-HTB1 locus (18). Snf5p also interacts with Taf14p, another component of the SWI/SNF complex, and interacts with histone H2B at the HTA1 promoter (22, 23, 21). Residues 269-680, which include the evolutionarily-conserved repeat motifs Rep1 and Rep2, are necessary for Snf5p function (19).

snf5 null mutants are viable, but display reduced growth on glucose and sucrose, are unable to grow on raffinose, galactose, or glycerol, and are hypersensitive to lithium and calcium ions (1, 13, 24). snf5 null mutations are synthetically lethal in combination with dst1 null mutations (25, 26), and expression of an active Moloney murine leukemia virus (M-MuLV) integrase (IN) is lethal in rad52 null mutants, but not in rad52 snf5 double null mutants (27).

Snf5p is similar to Sfh1p, Drosophila SNR1, Schizosaccharomyces pombe Snf5p, and Arabidopsis thaliana BSH, which can partially complement the defects seen in snf5 null mutants (28, 29, 30, 31). Snf5p also has a region of similarity to zebrafish SMARCB1 and Caenorhabditis elegans R07E5.3 (19). The human homolog of Snf5p (SMARCB1) is a tumor suppressor, mutation of which is associated with oncogenesis (19, 32). SMARCB1 binds to Epstein-Barr virus (EBV) nuclear protein 2 (EBNA2), which is expressed in latently-infected B lymphocytes and is essential to the immortalization of B cells by EBV (33). Human SMARCB1 also binds to human papillomavirus (HPV) E1 protein in two-hybrid assays and stimulates HPV DNA replication in vitro (34).

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 (35, 36, 6, 37, 38, 11, 39, 10, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 50, 57, 58, 59, 60, 24).

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 (61). 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 (62).

Last updated: 2006-03-24 Contact SGD

References cited on this page View Complete Literature Guide for SNF5
1) Neigeborn L and Carlson M  (1984) Genes affecting the regulation of SUC2 gene expression by glucose repression in Saccharomyces cerevisiae. Genetics 108(4):845-58
2) Kuchin SV, et al.  (1993) Genes required for derepression of an extracellular glucoamylase gene, STA2, in the yeast Saccharomyces. Yeast 9(5):533-41
3) Breeden L and Nasmyth K  (1987) Cell cycle control of the yeast HO gene: cis- and trans-acting regulators. Cell 48(3):389-97
4) Ciriacy M, et al.  (1991) Characterization of trans-acting mutations affecting Ty and Ty-mediated transcription in Saccharomyces cerevisiae. Curr Genet 20(6):441-8
5) Ciriacy M and Williamson VM  (1981) Analysis of mutations affecting Ty-mediated gene expression in Saccharomyces cerevisiae. Mol Gen Genet 182(1):159-63
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 Tamkun JW  (1995) The SWI-SNF complex: a chromatin remodeling machine? Trends Biochem Sci 20(4):143-6
8) Ghosh Dastidar R, et al.  (2012) The nuclear localization of SWI/SNF proteins is subjected to oxygen regulation. Cell Biosci 2(1):30
9) Carlson M, et al.  (1981) Mutants of yeast defective in sucrose utilization. Genetics 98(1):25-40
10) 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
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) Smith CL, et al.  (2003) Structural analysis of the yeast SWI/SNF chromatin remodeling complex. Nat Struct Biol 10(2):141-5
13) Abrams E, et al.  (1986) Molecular analysis of SNF2 and SNF5, genes required for expression of glucose-repressible genes in Saccharomyces cerevisiae. Mol Cell Biol 6(11):3643-51
14) Laurent BC, et al.  (1990) The SNF5 protein of Saccharomyces cerevisiae is a glutamine- and proline-rich transcriptional activator that affects expression of a broad spectrum of genes. Mol Cell Biol 10(11):5616-25
15) Laurent BC, et al.  (1991) Functional interdependence of the yeast SNF2, SNF5, and SNF6 proteins in transcriptional activation. Proc Natl Acad Sci U S A 88(7):2687-91
16) Happel AM, et al.  (1991) The SNF2, SNF5 and SNF6 genes are required for Ty transcription in Saccharomyces cerevisiae. Genetics 128(1):69-77
17) 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
18) Dimova D, et al.  (1999) A role for transcriptional repressors in targeting the yeast Swi/Snf complex. Mol Cell 4(1):75-83
19) Geng F, et al.  (2001) Essential roles of Snf5p in Snf-Swi chromatin remodeling in vivo. Mol Cell Biol 21(13):4311-20
20) Oki M, et al.  (2004) Barrier proteins remodel and modify chromatin to restrict silenced domains. Mol Cell Biol 24(5):1956-67
21) Xu F, et al.  (2005) Acetylation in histone H3 globular domain regulates gene expression in yeast. Cell 121(3):375-85
22) Cairns BR, et al.  (1996) TFG/TAF30/ANC1, a component of the yeast SWI/SNF complex that is similar to the leukemogenic proteins ENL and AF-9. Mol Cell Biol 16(7):3308-16
23) Recht J and Osley MA  (1999) Mutations in both the structured domain and N-terminus of histone H2B bypass the requirement for Swi-Snf in yeast. EMBO J 18(1):229-40
24) 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
25) Moehle CM and Jones EW  (1990) Consequences of growth media, gene copy number, and regulatory mutations on the expression of the PRB1 gene of Saccharomyces cerevisiae. Genetics 124(1):39-55
26) Davie JK and Kane CM  (2000) Genetic interactions between TFIIS and the Swi-Snf chromatin-remodeling complex. Mol Cell Biol 20(16):5960-73
27) Vera J, et al.  (2005) Yeast system as a model to study Moloney murine leukemia virus integrase: expression, mutagenesis and search for eukaryotic partners. J Gen Virol 86(Pt 9):2481-8
28) Cao Y, et al.  (1997) Sfh1p, a component of a novel chromatin-remodeling complex, is required for cell cycle progression. Mol Cell Biol 17(6):3323-34
29) Treich I, et al.  (1998) Direct interaction between Rsc6 and Rsc8/Swh3,two proteins that are conserved in SWI/SNF-related complexes. Nucleic Acids Res 26(16):3739-45
30) Brzeski J, et al.  (1999) Identification and analysis of the Arabidopsis thaliana BSH gene, a member of the SNF5 gene family. Nucleic Acids Res 27(11):2393-9
31) Muchardt C, et al.  (1995) A human protein with homology to Saccharomyces cerevisiae SNF5 interacts with the potential helicase hbrm. Nucleic Acids Res 23(7):1127-32
32) Bonazzi V, et al.  (2005) Complementation analyses suggest species-specific functions of the SNF5 homology domain. Biochem Biophys Res Commun 336(2):634-8
33) Wu DY, et al.  (1996) Epstein-Barr virus nuclear protein 2 (EBNA2) binds to a component of the human SNF-SWI complex, hSNF5/Ini1. J Virol 70(9):6020-8
34) Lee D, et al.  (1999) Interaction of E1 and hSNF5 proteins stimulates replication of human papillomavirus DNA. Nature 399(6735):487-91
35) Cairns BR, et al.  (1996) RSC, an essential, abundant chromatin-remodeling complex. Cell 87(7):1249-60
36) 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
37) Harata M, et al.  (2000) Multiple actin-related proteins of Saccharomyces cerevisiae are present in the nucleus. J Biochem 128(4):665-71
38) Chervitz SA, et al.  (1998) Comparison of the complete protein sets of worm and yeast: orthology and divergence. Science 282(5396):2022-8
39) Cote J, et al.  (1994) Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex. Science 265(5168):53-60
40) 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
41) Quinn J, et al.  (1996) DNA-binding properties of the yeast SWI/SNF complex. Nature 379(6568):844-7
42) 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
43) 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
44) Pollard KJ and Peterson CL  (1997) Role for ADA/GCN5 products in antagonizing chromatin-mediated transcriptional repression. Mol Cell Biol 17(11):6212-22
45) 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
46) 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
47) 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
48) 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
49) Steger DJ, et al.  (2003) Regulation of chromatin remodeling by inositol polyphosphates. Science 299(5603):114-6
50) 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
51) 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
52) 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
53) Ferreira ME, et al.  (2005) Mechanism of transcription factor recruitment by acidic activators. J Biol Chem 280(23):21779-84
54) Whitehouse I, et al.  (1999) Nucleosome mobilization catalysed by the yeast SWI/SNF complex. Nature 400(6746):784-7
55) Yudkovsky N, et al.  (1999) Recruitment of the SWI/SNF chromatin remodeling complex by transcriptional activators. Genes Dev 13(18):2369-74
56) 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
57) Logie C and Peterson CL  (1997) Catalytic activity of the yeast SWI/SNF complex on reconstituted nucleosome arrays. EMBO J 16(22):6772-82
58) 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
59) 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
60) Flanagan JF and Peterson CL  (1999) A role for the yeast SWI/SNF complex in DNA replication. Nucleic Acids Res 27(9):2022-8
61) Neely KE and Workman JL  (2002) The complexity of chromatin remodeling and its links to cancer. Biochim Biophys Acta 1603(1):19-29
62) Miller ME, et al.  (1996) Adenovirus E1A specifically blocks SWI/SNF-dependent transcriptional activation. Mol Cell Biol 16(10):5737-43