Assembly of the Hap2p/Hap3p/Hap4p/Hap5p-DNA complex in Saccharomyces cerevisiae

Eukaryotic Cell

Volumn 4, Issue 11, 2005, Pages 1829-1839

  McNabb, David S ^a   Pinto, Inés ^a  

^a UNIVERSITY OF ARKANSAS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AAB 1 PROTEIN, NEUROSPORA; AAB-1 PROTEIN, NEUROSPORA; CARBON; CCAAT BINDING FACTOR; DNA; DNA BINDING PROTEIN; FUNGAL PROTEIN; HAP2 PROTEIN, FUNGAL; HAP3 PROTEIN, S CEREVISIAE; HAP4 PROTEIN, S CEREVISIAE; HAP5 PROTEIN, S CEREVISIAE; HYBRID PROTEIN; MESSENGER RNA; PROTEIN SUBUNIT; SACCHAROMYCES CEREVISIAE PROTEIN; TRANSACTIVATOR PROTEIN; TRANSCRIPTION FACTOR;

AMINO ACID SEQUENCE; ARTICLE; CHEMISTRY; CULTURE MEDIUM; GENE EXPRESSION REGULATION; GENETIC COMPLEMENTATION; GENETICS; MACROMOLECULE; METABOLISM; MOLECULAR GENETICS; PROTEIN BINDING; PROTEIN QUATERNARY STRUCTURE; SACCHAROMYCES CEREVISIAE;

AMINO ACID SEQUENCE; CARBON; CCAAT-BINDING FACTOR; CULTURE MEDIA; DNA; DNA-BINDING PROTEINS; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; GENETIC COMPLEMENTATION TEST; MACROMOLECULAR SUBSTANCES; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; PROTEIN STRUCTURE, QUATERNARY; PROTEIN SUBUNITS; RECOMBINANT FUSION PROTEINS; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TRANS-ACTIVATORS; TRANSCRIPTION FACTORS;

EUKARYOTA; MAMMALIA; SACCHAROMYCES CEREVISIAE;

EID: 27744560350     PISSN: 15359778     EISSN: None     Source Type: Journal    
DOI: 10.1128/EC.4.11.1829-1839.2005     Document Type: Article

References (57)

1. Ausubel, F. M., R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl. 1994. Current protocols in molecular biology. Greene Publishing Associates and Wiley-Interscience, New York, N.Y.
2. Baxevanis, A. D., G. Arents, E. N. Moudrianakis, and D. Landsman. 1995. A variety of DNA-binding and multimeric proteins contain the histone fold motif. Nucleic Acids Res. 23:2685-2691.
3. Bellorini, M., D. K. Lee, J. C. Dantonel, K. Zemzoumi, R. G. Roeder, L. Tora, and R. Mantovani. 1997. CCAAT binding NF-Y-TBP interactions: NF-YB and NF-YC require short domains adjacent to their histone fold motifs for association with TBP basic residues. Nucleic Acids Res. 25:2174-2181.
4. Bourgarel, D., C. C. Nguyen, and M. Bolotin-Fukuhara. 1999. HAP4, the glucose-repressed regulated subunit of the HAP transcriptional complex involved in the fermentation-respiration shift, has a functional homologue in the respiratory yeast Kluyveromyces lactis. Mol. Microbiol. 31:1205-1215.
5. Brachmann, C. B., A. Davies, G. J. Cost, E. Caputo, J. Li, P. Hieter, and J. D. Boeke. 1998. Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14:115-132.
6. Bucher, P. 1990. Weight matrix descriptions of four eukaryotic RNA polymerase 11 promoter elements derived from 502 unrelated promoter sequences. J. Mol. Biol. 212:563-578.
7. Cliften, P. F., L. W. Hillier, L. Fulton, T. Graves, T. Miner, W. R. Gish, R. H. Waterston, and M. Johnston. 2001. Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis. Genome Res. 11:1175-1186.
8. Courey, A., and R. Tjian. 1988. Analysis of SP1 in vivo reveals multiple transcriptional domains, including a novel glutamine rich activation motif. Cell 55:887-898.
9. Coustry, F., S. N. Maity, S. Sinha, and B. de Crombrugghe. 1996. The transcriptional activity of the CCAAT-binding factor CBF is mediated by two distinct activation domains, one in the CBF-B subunit and the other in the CBF-C subunit. J. Biol. Chem. 271:14485-14491.
10. Dang, V. D., C. Bohn, M. Bolotin-Fukuhara, and B. Daignan-Fornier. 1996. The CCAAT box-binding factor stimulates ammonium assimilation in Saccharomyces cerevisiae, defining a new cross-pathway regulation between nitrogen and carbon metabolisms. J. Bacteriol. 178:1842-1849.
11. Dang, V. D., M. Valens, M. Bolotin-Fukuhara, and B. Daignan-Fornier. 1996. Cloning of the ASN1 and ASN2 genes encoding asparagine synthetases in Saccharomyces cerevisiae: differential regulation by the CCAAT-box-binding factor. Mol. Microbiol. 22:681-692.
12. DeRisi, J. L., V. R. Iyer, and P. O. Brown. 1997. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278:680-686.
13. Edwards, D., J. A. Murray, and A. G. Smith. 1998. Multiple genes encoding the conserved CCAAT-box transcription factor complex are expressed in Arabidopsis. Plant Physiol. 117:1015-1022.
14. Flores, C. L., C. Rodriguez, T. Petit, and C. Gancedo. 2000. Carbohydrate and energy-yielding metabolism in non-conventional yeasts. FEMS Microbiol. Rev. 24:507-529.
15. Forsburg, S. L., and L. Guarente. 1989. Identification and characterization of HAP4: a third component of the CCAAT-bound HAP2/HAP3 heteromer. Genes Dev. 3:1166-1178.
16. Gancedo, J. M. 1998. Yeast carbon catabolite repression. Microbiol. Mol. Biol. Rev. 62:334-361.
17. Gietz, R. D., R. H. Schiestl, A. R. Willems, and R. A. Woods. 1995. Studies on the transformation of intact yeast cells by the LiAc/SS-DNA/PEG procedure. Yeast 11:355-360.
18. Gietz, R. D., and A. Sugino. 1988. New yeast-Escherichia coli shuttle vectors constructed with in vitro mutagenized yeast genes lacking six-base pair restriction sites. Gene 74:527-534.
19. Guan, K. L., and J. E. Dixon. 1991. Eukaryotic proteins expressed in Escherichia coli: an improved thrombin cleavage and purification procedure of fusion proteins with glutathione S-transferase. Anal. Biochem. 192:262-267.
20. Guarente, L., and M. Ptashne. 1981. Fusion of Escherichia coli lacZ to the cytochrome c gene of Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 78:2199-2203.
21. Gusmaroli, G., C. Tonelli, and R. Mantovani. 2001. Regulation of the CCAAT-binding NF-Y subunits in Arabidopsis thaliana. Gene 264:173-185.
22. Guthrie, C., and G. R. Fink. 1991. Guide to yeast genetics and molecular biology. Academic Press, San Diego, CA.
23. Hahn, S., and L. Guarente. 1988. Yeast HAP2 and HAP3: transcriptional activators in a heteromeric complex. Science 240:317-321.
24. Hahn, S., J. Pinkham, R. Wei, R. Miller, and L. Guarente. 1988. The HAP3 regulatory locus of Saccharomyces cerevisiae encodes divergent overlapping transcripts. Mol. Cell. Biol. 8:655-663.
25. Harlow, E., and D. Lane. 1988. Antibodies: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
26. Hoffman, C. S., and F. Winston. 1987. A ten-minute DNA preparation from yeast efficiently releases autonomous plasmids for transformation of Escherichia coli. Gene 57:267-272.
27. Horvath, A., and H. Riezman. 1994. Rapid protein extraction from Saccharomyces cerevisiae. Yeast 10:1305-1310.
28. Iizuka, N., L. Najita, A. Franzusoff, and P. Sarnow. 1994. Cap-dependent and cap-independent translation by internal initiation of mRNAs in cell extracts prepared from Saccharomyces cerevisiae. Mol. Cell. Biol. 14:7322-7330.
29. Kim, I. S., S. Sinha, B. de Crombrugghe, and S. N. Maity. 1996. Determination of functional domains in the C subunit of the CCAAT-binding factor (CBF) necessary for formation of a CBF-DNA complex: CBF-B interacts simultaneously with both the CBF-A and CBF-C subunits to form a heterotrimeric CBF molecule. Mol. Cell. Biol. 16:4003-4013.
30. Klein, C. J., L. Olsson, and J. Nielsen. 1998. Glucose control in Saccharomyces cerevisiae: the role of Mig1 in metabolic functions. Microbiology 144:13-24.
31. Lascaris, R., H. J. Bussemaker, A. Boorsma, M. Piper, H. van der Spek, L. Grivell, and J. Blom. 2003. Hap4p overexpression in glucose-grown Saccharomyces cerevisiae induces cells to enter a novel metabolic state. Genome Biol. 4:R3.
32. Li, X. Y., M. G. Mattei, Z. Zaleska-Rutczynska, R. Hooft van Huijsduijnen, F. Figueroa, J. Nadeau, C. Benoist, and D. Mathis. 1991. One subunit of the transcription factor NF-Y maps close to the major histocompatibility complex in murine and human chromosomes. Genomics 11:630-634.
33. Liang, S. G., and S. N. Maity. 1998. Pathway of complex formation between DNA and three subunits of CBF/NF-Y. Photocross-linking analysis of DNA-protein interaction and characterization of equilibrium steps of subunit interaction and DNA binding. J. Biol. Chem. 273:31590-31598.
34. Maity, S. N., S. Sinha, E. C. Ruteshouser, and B. de Crombrugghe. 1992. Three different polypeptides are necessary for DNA binding of the mammalian heteromeric CCAAT binding factor. J. Biol. Chem. 267:16574-16580.
35. Mantovani, R. 1999. The molecular biology of the CCAAT-binding factor NF-Y. Gene 239:15-27.
36. Mantovani, R. 1998. A survey of 178 NF-Y binding CCAAT boxes. Nucleic Acids Res. 26:1135-1143.
37. McNabb, D. S., K. A. Tseng, and L. Guarente. 1997. The Saccharomyces cerevisiae Hap5p homolog from fission yeast reveals two conserved domains that are essential for assembly of heterotetrameric CCAAT-binding factor. Mol. Cell. Biol. 17:7008-7018.
38. McNabb, D. S., Y. Xing, and L. Guarente. 1995. Cloning of yeast HAP5: a novel subunit of a heterotrimeric complex required for CCAAT binding Genes Dev. 9:47-58.
39. Olesen, J. T., and L. Guarente. 1990. The HAP2 subunit of yeast CCAAT transcriptional activator contains adjacent domains for subunit association and DNA recognition: model for the HAP2/3/4 complex. Genes Dev. 4:1714-1729.
40. Pinkham, J. L., J. T. Olesen, and L. P. Guarente. 1987. Sequence and nuclear localization of the Saccharomyces cerevisiae HAP2 protein, a transcriptional activator. Mol. Cell. Biol. 7:578-585.
41. Riego, L., A. Avendano, A. DeLuna, E. Rodriguez, and A. Gonzalez. 2002. GDH1 expression is regulated by GLN3, GCN4, and HAP4 under respiratory growth. Biochem. Biophys. Res. Commun. 293:79-85.
42. Romier, C., F. Cocchiarella, R. Mantovani, and D. Moras. 2003. The NF-YB/NF-YC structure gives insight into DNA binding and transcription regulation by CCAAT factor NF-Y. J. Biol. Chem. 278:1336-1345.
43. Sambrook, J., E. G. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
44. Schneider, B. L., W. Seufert, B. Steiner, Q. H. Yang, and A. B. Futcher. 1995. Use of polymerase chain reaction epitope tagging for protein tagging in Saccharomyces cerevisiae. Yeast 11:1265-1274.
45. Schuller, H. J. 2003. Transcriptional control of nonfermentative metabolism in the yeast Saccharomyces cerevisiae. Curr. Genet. 43:139-160.
46. Seino, A., Y. Yanagida, M. Aizawa, and E. Kobatake. 2005. Translational control by internal ribosome entry site in Saccharomyces cerevisiae. Biochim. Biophys. Acta 1681:166-174.
47. Sinha, S., I. S. Kim, K. Y. Sohn, B. de Crombrugghe, and S. N. Maity. 1996. Three classes of mutations in the A subunit of the CCAAT-binding factor CBF delineate functional domains involved in the three-step assembly of the CBF-DNA complex. Mol. Cell. Biol. 16:328-337.
48. Sinha, S., S. N. Maity, J. Lu, and B. de Crombrugghe. 1995. Recombinant rat CBF-C, the third subunit of CBF/NFY, allows formation of a protein-DNA complex with CBF-A and CBF-B and with yeast HAP2 and HAP3. Proc. Natl. Acad. Sci. USA 92:1624-1628.
49. Sinha, S., S. N. Maity, M. F. Seldin, and B. de Crombrugghe. 1996. Chromosomal assignment and tissue expression of CBF-C/NFY-C, the third subunit of the mammalian CCAAT-binding factor. Genomics 37:260-263.
50. Stebbins, J. L., and S. J. Triezenberg. 2004. Identification, mutational analysis, and coactivator requirements of two distinct transcriptional activation domains of the Saccharomyces cerevisiae Hap4 protein. Eukaryot. Cell 3:339-347.
51. Sybirna, K., B. Guiard, Y. F. Li, W. G. Bao, M. Bolotin-Fukuhara, and A. Delahodde. 2005. A new Hansenula polymorpha HAP4 homologue which contains only the N-terminal conserved domain of the protein is fully functional in Saccharomyces cerevisiae. Curr. Genet. 47:172-181.
52. Triezenberg, S. J., K. L. LaMarco, and S. L. McKnight. 1988. Evidence of DNA:protein interactions that mediate HSV-1 immediate early gene activation by VP16. Genes Dev. 2:730-742.
53. Walker, G. M. 1998. Yeast: physiology and biotechnology. John Wiley & Sons, Ltd., West Sussex, England, United Kingdom.
54. Winston, F., C. Dollard, and S. L. Ricupero-Hovasse. 1995. Construction of a set of convenient Saccharomyces cerevisiae strains that are isogenic to S288C. Yeast 11:53-55.
55. Xing, Y., J. D. Fikes, and L. Guarente. 1993. Mutations in yeast HAP2/HAP3 define a hybrid CCAAT box binding domain. EMBO J. 12:4647-4655.
56. Xing, Y., S. Zhang, J. T. Olesen, A. Rich, and L. Guarente. 1994. Subunit interaction in the CCAAT-binding heteromeric complex is mediated by a very short alpha-helix in HAP2. Proc. Natl. Acad. Sci. USA 91:3009-3013.
57. Zitomer, R. S., and C. V. Lowry. 1992. Regulation of gene expression by oxygen in Saccharomyces cerevisiae. Microbiol. Rev. 56:1-11.