DNase I footprinting

Cold Spring Harbor Protocols

Volumn 8, Issue 5, 2013, Pages 469-478

  Carey, Michael F ^a   Peterson, Craig L ^a   Smale, Stephen T ^a  

^a NONE

Author keywords

[No Author keywords available]

Indexed keywords

DNA FRAGMENT; PHOSPHORUS 32; DEOXYRIBONUCLEASE I; DNA; DNA BINDING PROTEIN; PHOSPHORUS;

ARTICLE; AUTORADIOGRAPHY; CONTROLLED STUDY; DNA BINDING; DNA FOOTPRINTING; DNA SEQUENCE; DOSE RESPONSE; GEL ELECTROPHORESIS; ISOTOPE LABELING; BINDING SITE; METABOLISM; METHODOLOGY;

BINDING SITES; DEOXYRIBONUCLEASE I; DNA; DNA FOOTPRINTING; DNA-BINDING PROTEINS; ISOTOPE LABELING; PHOSPHORUS RADIOISOTOPES;

EID: 84877094445     PISSN: 19403402     EISSN: 15596095     Source Type: Journal    
DOI: 10.1101/pdb.prot074328     Document Type: Article

References (14)

1. Brenowitz M, Senear DF, Shea MA, Ackers GK. 1986. Quantitative DNase footprint titration: A method for studying protein-DNA interactions. Methods Enzymol 130: 132-181.
2. Carey M, Kakidani H, Leatherwood J, Mostashari F, Ptashne M. 1989. An amino-terminal fragment of GAL4 binds DNA as a dimer. J Mol Biol 209: 423-432.
3. Carey MF, Peterson CL, Smale ST. 2012. Experimental strategies for the identification of DNA-binding proteins. Cold Spring Harb Protoc doi: 10.1101/pdb.top067470.
4. Carey MF, Peterson CL, Smale ST. 2013. Preparation of P-end-labeled DNA fragments for performing DNA-binding experiments. Cold Spring Harb Protoc doi: 10.1101/pdb.prot074336
5. Dignam JD, Lebovitz RM, Roeder RG. 1983. Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei. Nucleic Acids Res 11: 1475-1489.
6. Galas DJ, Schmitz A. 1978. DNase footprinting: A simple method for the detection of protein-DNA binding specificity. Nucleic Acids Res 5: 3157-3170.
7. Gralla JD. 1985. Rapid footprinting on supercoiled DNA. Proc Natl Acad Sci 2: 3078-3081.
8. Grange T, Bertrand E, Espinas ML, Fromont-Racine M, Rigaud G, Roux J, Pictet R. 1997. In vivo footprinting of the interaction of proteins with DNA and RNA. Methods 11: 151-163.
9. Jen-Jacobson L. 1997. Protein-DNA recognition complexes: Conservation of structure and binding energy in the transition state. Biopolymers 44: 153-180.
10. Koblan KS, Bain DL, Beckett D, Shea MA, Ackers GK. 1992. Analysis of sitespecific interaction parameters in protein-DNA complexes. Methods Enzymol 210: 405-425.
11. Maxam AM, Gilbert W. 1977. A new method for sequencing DNA. Proc Natl Acad Sci 74: 560-564.
12. Record MT Jr, Ha JH, Fisher MA. 1991. Analysis of equilibrium and kinetic measurements to determine thermodynamic origins of stability and specificity and mechanism of formation of site-specific complexes between proteins and helical DNA. Methods Enzymol 208: 291- 343.
13. Sambrook J, Russell DW. 2001. Molecular cloning: A laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
14. Suck D. 1994. DNA recognition by DNase I. J Mol Recognit 7: 65-70.