In vitro selection of DNA binding sites for ABF1 protein from Saccharomyces cerevisiae

FEBS Letters

Volumn 579, Issue 20, 2005, Pages 4535-4540

  Beinoravičiute Kellner, Rasa ^a,b   Lipps, Georg ^a   Krauss, Gerhard ^a  

^a UNIVERSITY OF BAYREUTH   (Germany)

^b UNIVERSITY OF WÜRZBURG   (Germany)

Author keywords

ABF1; DNA binding specificity; SELEX

Indexed keywords

APTAMER; ARS BINDING FACTOR 1; DNA; DNA BINDING PROTEIN; FUNGAL PROTEIN; NUCLEOTIDE; OLIGONUCLEOTIDE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; BINDING SITE; CHROMATIN STRUCTURE; DNA BINDING; DNA REPLICATION; DNA SEQUENCE; GEL MOBILITY SHIFT ASSAY; IN VITRO STUDY; NONHUMAN; NUCLEOSOME; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN MOTIF; QUANTITATIVE ANALYSIS; RANDOMIZATION; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION REGULATION;

SACCHAROMYCES CEREVISIAE;

EID: 23644431878     PISSN: 00145793     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.febslet.2005.07.009     Document Type: Article

References (20)

1. J.F. Diffley, and B. Stillman Purification of a yeast protein that binds to origins of DNA replication and a transcriptional silencer Proc. Natl. Acad. Sci. USA 85 1988 2120 2124
2. S. Eisenberg, C. Civalier, and B.K. Tye Specific interaction between a Saccharomyces cerevisiae protein and a DNA element associated with certain autonomously replicating sequences Proc. Natl. Acad. Sci. USA 85 1988 743 746
3. F. Della Seta, S.A. Ciafre, C. Marck, B. Santoro, C. Presutti, A. Sentenac, and I. Bozzoni The ABF1 factor is the transcriptional activator of the L2 ribosomal protein genes in Saccharomyces cerevisiae Mol. Cell Biol. 10 1990 2437 2441
4. C.A. Fox, S. Loo, D.H. Rivier, M.A. Foss, and J. Rine A transcriptional silencer as a specialized origin of replication that establishes functional domains of chromatin Cold Spring Harb. Symp. Quant. Biol. 58 1993 443 455 443-455
5. J.D. Trawick, N. Kraut, F.R. Simon, and R.O. Poyton Regulation of yeast COX6 by the general transcription factor ABF1 and separate HAP2- and heme-responsive elements Mol. Cell Biol. 12 1992 2302 2314
6. V. Gailus-Durner, J. Xie, C. Chintamaneni, and A.K. Vershon Participation of the yeast activator Abf1 in meiosis-specific expression of the HOP1 gene Mol. Cell Biol. 16 1996 2777 2786
7. L.S. Kraakman, G. Griffioen, S. Zerp, P. Groeneveld, J.M. Thevelein, W.H. Mager, and R.J. Planta Growth-related expression of ribosomal protein genes in Saccharomyces cerevisiae Mol. Gen. Genet. 239 1993 196 204
8. S.H. Reed, M. Akiyama, B. Stillman, and E.C. Friedberg Yeast autonomously replicating sequence binding factor is involved in nucleotide excision repair Genes Dev. 13 1999 3052 3058
9. J.L. Reid, V.R. Iyer, P.O. Brown, and K. Struhl Coordinate regulation of yeast ribosomal protein genes is associated with targeted recruitment of Esa1 histone acetylase Mol. Cell 6 2000 1297 1307
10. R.F. Lascaris, E. Groot, P.B. Hoen, W.H. Mager, and R.J. Planta Different roles for abf1p and a T-rich promoter element in nucleosome organization of the yeast RPS28A gene Nucleic Acids Res. 28 2000 1390 1396
11. H. Halfter, U. Muller, E.L. Winnacker, and D. Gallwitz Isolation and DNA-binding characteristics of a protein involved in transcription activation of two divergently transcribed, essential yeast genes EMBO J. 8 1989 3029 3037
12. S.C. Schroeder, and P.A. Weil Biochemical and genetic characterization of the dominant positive element driving transcription ofthe yeast TBP-encoding gene, SPT15 Nucleic Acids Res. 26 1998 4186 4195
13. S. Mukherjee, M.F. Berger, G. Jona, X.S. Wang, D. Muzzey, M. Snyder, R.A. Young, and M.L. Bulyk Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays Nat. Genet. 36 2004 1331 1339
14. T.I. Lee, N.J. Rinaldi, F. Robert, D.T. Odom, Z. Bar-Joseph, G.K. Gerber, N.M. Hannett, C.T. Harbison, C.M. Thompson, I. Simon, J. Zeitlinger, E.G. Jennings, H.L. Murray, D.B. Gordon, B. Ren, J.J. Wyrick, J.B. Tagne, T.L. Volkert, E. Fraenkel, D.K. Gifford, and R.A. Young Transcriptional regulatory networks in Saccharomyces cerevisiae Science 298 2002 799 804
15. T.L. Bailey, and C. Elkan Fitting a mixture model by expectation maximization to discover motifs in biopolymers Proc. Int. Conf. Intell. Syst. Mol. Biol. 2 1994 28 36
16. T. Miyake, C.M. Loch, and R. Li Identification of a multifunctional domain in autonomously replicating sequence-binding factor 1 required for transcriptional activation, DNA replication, and gene silencing Mol. Cell Biol. 22 2002 505 516
17. Y. Cui, Q. Wang, G.D. Stormo, and J.M. Calvo A consensus sequence for binding of Lrp to DNA J. Bacteriol. 177 1995 4872 4880
18. S.D. Goodman, N.J. Velten, Q. Gao, S. Robinson, and A.M. Segall In vitro selection of integration host factor binding sites J. Bacteriol. 181 1999 3246 3255
19. S.J. Klug, and M. Famulok All you wanted to know about SELEX Mol. Biol Rep. 20 1994 97 107
20. T. Miyake, J. Reese, C.M. Loch, D.T. Auble, and R. Li Genome-wide analysis of ARS (autonomously replicating sequence) binding factor 1 (Abf1p)-mediated transcriptional regulation in Saccharomyces cerevisiae J. Biol. Chem. 279 2004 34865 34872