Nucleic Acids Research, 1978, Vol. 5, No. 9 3157-3170
© 1978
Articles |
DNAase footprinting a simple method for the detection of protein-DNA binding specificity
Départment de Biologie Moléculaire Université de Genève Genève Switzerland
Received July 6, 1978. A method for studying the sequence-specific binding of proteins to DNA is described. The technique is a simple conjoining of the Maxam-Gilbert DNA-sequencing method and the technique of DNAase-protected fragment isolation. Fragments of a 5' end-labelled, double-stranded DNA segment, partially degraded by DNAase in the presence and absence of the binding protein, are visualized by eletrophoresis and autoradiography alongside the base-specific reaction products of the Maxam-Gilbert sequencing method. It is then possible to see the protective "footprint" of the binding protein on the DNA sequence. The binding of lac repressor to lac operator is visualized by "footprinting" as an example. Equilibrium estimates indicate that 10-fold sequence-specificity (differential binding constant) could be studied easily using this technique.
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 P. A. Doevendans, P. Ruiz-Lozano, and M. van Bilsen Hunting down nucleic acid binding factors in the cardiovascular system Cardiovasc Res, May 1, 1998; 38(2): 301 - 315. [Abstract] [Full Text] [PDF]
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 R. Sharon-Friling, J. Richardson, S. Sperbeck, D. Lee, M. Rauchman, R. Maas, A. Swaroop, and G. Wistow Lens-Specific Gene Recruitment of zeta -Crystallin through Pax6, Nrl-Maf, and Brain Suppressor Sites Mol. Cell. Biol., April 1, 1998; 18(4): 2067 - 2076. [Abstract] [Full Text]
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P. Vorgia, V. I. Zannis, and D. Kardassis A Short Proximal Promoter and the Distal Hepatic Control Region-1 (HCR-1) Contribute to the Liver Specificity of the Human Apolipoprotein C-II Gene. HEPATIC ENHANCEMENT BY HCR-1 REQUIRES TWO PROXIMAL HORMONE RESPONSE ELEMENTS WHICH HAVE DIFFERENT BINDING SPECIFICITIES FOR ORPHAN RECEPTORS HNF-4, ARP-1, and EAR-2 J. Biol. Chem., February 13, 1998; 273(7): 4188 - 4196. [Abstract] [Full Text] [PDF]
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N. Minegishi, J. Ohta, N. Suwabe, H. Nakauchi, H. Ishihara, N. Hayashi, and M. Yamamoto Alternative Promoters Regulate Transcription of the Mouse GATA-2 Gene J. Biol. Chem., February 6, 1998; 273(6): 3625 - 3634. [Abstract] [Full Text] [PDF]
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D. R. Stauffer, B. N. Chukwumezie, J. A. Wilberding, E. D. Rosen, and F. J. Castellino Characterization of Transcriptional Regulatory Elements in the Promoter Region of the Murine Blood Coagulation Factor VII Gene J. Biol. Chem., January 23, 1998; 273(4): 2277 - 2287. [Abstract] [Full Text] [PDF]
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K. C. Quon, B. Yang, I. J. Domian, L. Shapiro, and G. T. Marczynski Negative control of bacterial DNA replication by a cell cycle regulatory protein that binds at the chromosome origin PNAS, January 6, 1998; 95(1): 120 - 125. [Abstract] [Full Text] [PDF]
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T Theil, M Frain, P Gilardi-Hebenstreit, A Flenniken, P Charnay, and D. Wilkinson Segmental expression of the EphA4 (Sek-1) receptor tyrosine kinase in the hindbrain is under direct transcriptional control of Krox-20 Development, January 2, 1998; 125(3): 443 - 452. [Abstract] [PDF]
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H. Luo and V. Bellofatto Characterization of Two Protein Activities That Interact at the Promoter of the Trypanosomatid Spliced Leader RNA J. Biol. Chem., December 26, 1997; 272(52): 33344 - 33352. [Abstract] [Full Text] [PDF]
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D. Chen, M. P. A. Davies, P. S. Rudland, and R. Barraclough Transcriptional Down-regulation of the Metastasis-inducing S100A4 (p9Ka) in Benign but Not in Malignant Rat Mammary Epithelial Cells by GC-factor J. Biol. Chem., August 8, 1997; 272(32): 20283 - 20290. [Abstract] [Full Text] [PDF]
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D. A. Fenstermacher and D. R. Joseph DNA Sequences and Their Binding Proteins Required for Sertoli Cell-Specific Transcription of the Rat Androgen-Binding Protein Gene Mol. Endocrinol., August 1, 1997; 11(9): 1387 - 1400. [Abstract] [Full Text]
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K. S. Stranick, D. N. Zambas, A. S. Uss, R. W. Egan, M. M. Billah, and S. P. Umland Identification of Transcription Factor Binding Sites Important in the Regulation of the Human Interleukin-5 Gene J. Biol. Chem., June 27, 1997; 272(26): 16453 - 16465. [Abstract] [Full Text] [PDF]
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P. Zhang and S. H. Mellon Multiple Orphan Nuclear Receptors Converge to Regulate Rat P450c17 Gene Transcription: Novel Mechanisms for Orphan Nuclear Receptor Action Mol. Endocrinol., June 1, 1997; 11(7): 891 - 904. [Abstract] [Full Text]
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O. D. Scharer, T. Kawate, P. Gallinari, J. Jiricny, and G. L. Verdine Investigation of the mechanisms of DNA binding of the human G/T glycosylase using designed inhibitors PNAS, May 13, 1997; 94(10): 4878 - 4883. [Abstract] [Full Text] [PDF]
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J. L. Dahl, B.-Y. Wei, and R. J. Kadner Protein Phosphorylation Affects Binding of the Escherichia coli Transcription Activator UhpA to the uhpT Promoter J. Biol. Chem., January 17, 1997; 272(3): 1910 - 1919. [Abstract] [Full Text] [PDF]
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L. Elnitski, W. Miller, and R. Hardison Conserved E Boxes Function as Part of the Enhancer in Hypersensitive Site 2of the beta -Globin Locus Control Region. ROLE OF BASIC HELIX-LOOP-HELIX PROTEINS J. Biol. Chem., January 3, 1997; 272(1): 369 - 378. [Abstract] [Full Text] [PDF]
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F. Bulens, P. Merchiers, I. Ibanez-Tallon, A. De Vriese, L. Nelles, F. Claessens, A. Belayew, and D. Collen Identification of a Multihormone Responsive Enhancer Far Upstream from the Human Tissue-type Plasminogen Activator Gene J. Biol. Chem., January 3, 1997; 272(1): 663 - 671. [Abstract] [Full Text] [PDF]
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K. J. Conn, C. B. Rich, D. E. Jensen, M. R. Fontanilla, M. M. Bashir, J. Rosenbloom, and J. A. Foster Insulin-like Growth Factor-I Regulates Transcription of the Elastin Gene through a Putative Retinoblastoma Control Element. A ROLE FOR Sp3 ACTING AS A REPRESSOR OF ELASTIN GENE TRANSCRIPTION J. Biol. Chem., November 15, 1996; 271(46): 28853 - 28860. [Abstract] [Full Text] [PDF]
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M. J. Kosovsky, B. Huan, and A. Siddiqui Purification and Properties of Rat Liver Nuclear Proteins That Interact with the Hepatitis B Virus Enhancer 1 J. Biol. Chem., September 6, 1996; 271(36): 21859 - 21869. [Abstract] [Full Text] [PDF]
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