Detection of protein-DNA interactions in crude cellular extracts by fluorescence correlation spectroscopy

Analytical Biochemistry

Volumn 332, Issue 1, 2004, Pages 58-66

  Kobayashi, Tamiyo ^a   Okamoto, Naoaki ^a   Sawasaki, Tatsuya ^b   Endo, Yaeta ^b  

^a OLYMPUS CORPORATION   (Japan)

^b EHIME UNIVERSITY   (Japan)

Author keywords

Fluorescence correlation spectroscopy; Protein DNA interaction; Transcription factor

Indexed keywords

CELL DEATH; DNA; FLUORESCENCE; FLUORESCENCE SPECTROSCOPY; LANTHANUM COMPOUNDS; PROTEINS; SPECTROSCOPIC ANALYSIS; SPECTRUM ANALYSIS; TRANSCRIPTION; TRANSCRIPTION FACTORS;

CRUDE CELLULAR EXTRACTS; EXPERIMENTAL CONDITIONS; FLUORESCENCE CORRELATION SPECTROSCOPY; MULTI-COMPONENT ANALYSIS; PROTEIN-DNA INTERACTIONS; RECIPROCAL REGULATION; TRANSLATIONAL DIFFUSION; TUMOR NECROSIS FACTOR ALPHA;

FACTOR ANALYSIS;

CELL EXTRACT; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; PYRROLIDINE DITHIOCARBAMATE; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR AP 1; TUMOR NECROSIS FACTOR ALPHA;

ARTICLE; CONTROLLED STUDY; DNA SEQUENCE; FEMALE; FLUORESCENCE CORRELATION SPECTROSCOPY; HUMAN; HUMAN CELL; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN DNA INTERACTION; QUANTITATIVE ANALYSIS; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION;

EID: 4143147548     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ab.2004.05.053     Document Type: Article

References (27)

1. Magde D., Elson E.L., Webb W.W. Fluorescence correlation spectroscopy. II. An experimental realization. Biopolymers. 13:1974;29-61
2. Koppel D.E. Statistical accuracy in fluorescence correlation spectroscopy. Phys. Rev. A. 10:1974;1938-1945
3. Ehrenberg M., Cronvall E., Rigler R. Fluorescence of proteins interacting with nucleic acids. Correction for light absorption. FEBS Lett. 18:1971;199-203
4. Eggeling C., Fries J.R., Brand L., Gunther R., Seidel C.A. Monitoring conformational dynamics of a single molecule by selective fluorescence spectroscopy. Proc. Natl. Acad. Sci. USA. 95:1998;1556-1561
5. Borsch M., Turina P., Eggeling C., Fries J.R., Seidel C.A., Labahn A., Graber P. Conformational changes of the H+-ATPase from Escherichia coli upon nucleotide binding detected by single molecule fluorescence. FEBS Lett. 437:1998;251-254
6. Kinjo M., Rigler R. Ultrasensitive hybridization analysis using fluorescence correlation spectroscopy. Nucleic Acids Res. 23:1995;1795-1799
7. Kinjo M., Nishimura G., Koyama T., Mets U., Rigler R. Single-molecule analysis of restriction DNA fragments using fluorescence correlation spectroscopy. Anal. Biochem. 260:1998;166-172
8. Wolcke J., Reimann M., Klumpp M., Gohler T., Kim E., Deppert W. Analysis of p53 "latency" and "activation" by fluorescence correlation spectroscopy. Evidence for different modes of high affinity DNA binding. J. Biol. Chem. 278:2003;32587-32595
9. Schulze-Osthoff K., Beyaert R., Vandevoorde V., Haegeman G., Fiers W. Depletion of the mitochondrial electron transport abrogates the cytotoxic and gene-inductive effects of TNF. EMBO J. 12:1993;3095-3104
10. Manna S.K., Mukhopadhyay A., Aggarwal B.B. Resveratrol suppresses TNF-induced activation of nuclear transcription factors NF-kappa B, activator protein-1, and apoptosis: potential role of reactive oxygen intermediates and lipid peroxidation. J. Immunol. 164:2000;6509-6519
11. Bowie A.G., O'Neill L.A. Vitamin C inhibits NF-kappa B activation by TNF via the activation of p38 mitogen-activated protein kinase. J. Immunol. 165:2000;7180-7188
12. Gonzalez M.V., Jimenez B., Berciano M.T., Gonzalez-Sancho J.M., Caelles C., Lafarga M., Monoz A. Glucocorticoids anatagonize AP-1 by inhibiting the Activation/phosphorylation of JNK without affecting its subcellular distribution. J. Cell Biol. 150:2000;1199-1208
13. Manna S.K., Gad Y.P., Mukhopadhyay A., Aggarwal B.B. Suppression of tumor necrosis factor-activated nuclear transcription factor-kappa B, activator protein-1, c-Jun, N-terminal kinase and apoptosis by beta-lapachone. Biochem. Pharmacol. 57:1999;763-774
14. Meyer M., Schreck R., Baeuerle P.A. H2O2 and antioxidants have opposite effects on activation of NF-kappa B and AP-1 in intact cells: AP-1 as secondary antioxidant-responsive factor. EMBO J. 12:1993;2005-2015
15. Galter D., Mihm S., Dröge W. Distinct effects of glutathione disulphide on the nuclear transcription factor kappa B and the activator protein-1. Eur. J. Biochem. 221:1994;639-648
16. Vogt P.K., Bos T.J. jun:oncogen and transcription factor. Adv. Cancer Res. 55:1990;1-35
17. Baud V., Karin M. Signal transduction by tumor necrosis factor and its relatives. Trends Cell Biol. 11:2001;372-377
18. Cato A.C., Wade E. Molecular mechanisms of anti-inflammatory action of glucocorticoids. Bioassays. 18:1996;371-378
19. John M., Leppik R., Busch S.J., Granger-Schnarr M., Schnarr M. DNA binding of Jun and Fos bZip domains: homodimers and heterodimers induce a DNA conformational change in solution. Nucleic Acids Res. 24:1996;4487-4494
20. Benotmane A.M., Hoylaerts M.F., Collen D., Belayew A. Nonisotopic quantitative analysis of protein-DNA interactions at equilibrium. Anal. Biochem. 250:1997;181-185
21. Lenardo M.J., Baltimore D. NF-kappa B: a pleiotropic mediator of inducible and tissue-specific gene control. Cell. 58:1989;227-229
22. Baeuerle P.A., Baltimore D. NF-kappa B: ten years after. Cell. 87:1996;13-20
23. Bohmann D., Bos T.J., Admon A., Nishimura T., Vogt P.K., Tjian R. Human proto-oncogene c-jun encodes a DNA binding protein with structural and functional properties of transcription factor AP-1. Science. 238:1987;1386-1392
24. Angel P., Smeal T., Meek J., Karin M. Jun and v-jun contain multiple regions that participate in transcriptional activation in an interdependent manner. New Biol. 1:1989;35-43
25. Gilbert L., Toivola J., Lehtomaki E., Donaldson L., Kapyla P., Vuento M., Oker-Blom C. Assembly of fluorescent chimeric virus-like particles of canine parvovirus in insect cells. Biochem. Biophys. Res. Commun. 313:2004;878-887
26. Ruchira, M. A. Hink, L. Bosgraaf, P.J. Van Haastert, A.J. Visser, Pleckstrin homology domain diffusion in dictyostelium cytoplasm studied using fluorescence correlation spectroscopy, J. Biol. Chem. 279 (2004) 10013-10019
27. Bulseco D.A., Wolf D.E. Fluorescence correlation spectroscopy: molecular complexing in solution and in living cells. Methods Cell Biol. 72:2003;465-498