Fluorescence tools to measure helicase activity in real time

Methods

Volumn 51, Issue 3, 2010, Pages 259-268

  Toseland, Christopher P ^a   Webb, Martin R ^a  

^a NATIONAL INSTITUTE FOR MEDICAL RESEARCH   (United Kingdom)

Author keywords

Biosensor; Fluorescence; Helicase; Kinetics; Mechanism

Indexed keywords

ADENINE NUCLEOTIDE; ADENOSINE TRIPHOSPHATE; DNA; DOUBLE STRANDED DNA; HELICASE; PCRA ENZYME; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

BIOSENSOR; ENZYME ACTIVITY; FLUORESCENCE ANALYSIS; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN HYDROLYSIS; REVIEW;

BIOSENSING TECHNIQUES; DNA HELICASES; FLUORESCENT DYES;

BACTERIA (MICROORGANISMS);

EID: 77954021875     PISSN: 10462023     EISSN: 10959130     Source Type: Journal    
DOI: 10.1016/j.ymeth.2010.02.012     Document Type: Review

References (73)

1. Eccleston J.F., Hutchinson J.P., Jameson D.M. Prog. Med. Chem. 2005, 43:19-48.
2. Bjornson K.P., Amaratunga M., Moore K.J., Lohman T.M. Biochemistry 1994, 33:14306-14316.
3. Cheng W., Hsieh J., Brendza K.M., Lohman T.M. J. Mol. Biol. 2001, 310:327-350.
4. Ha T., Rasnik I., Cheng W., Babcock H.P., Gauss G.H., Lohman T.M., Chu S.H. Nature 2002, 419:638-641.
5. Moore K.J., Lohman T.M. Biochemistry 1994, 33:14550-14564.
6. Dillingham M.S., Wigley D.B., Webb M.R. Biochemistry 2000, 39:205-212.
7. Henn A., Cao W., Hackney D.D., De La Cruz E.M. J. Mol. Biol. 2008, 377:193-205.
8. Chen X., Stitt B.L., Biol J. J. Biol. Chem. 2009, 284:33773-33780.
9. Pandey M., Syed S., Donmez I., Patel G., Ha T., Patel S.S. Nature 2009, 462:940-943.
10. Theissen B., Karow A.R., Kahler J., Gubaev A., Klostermeier D. Proc. Natl. Acad. Sci. USA 2008, 105:548-553.
11. Toseland C.P., Martinez-Senac M.M., Slatter A.F., Webb M.R. J. Mol. Biol. 2009, 392:1020-1032.
12. Hsieh J., Moore K.J.M., Lohman T.M. J. Mol. Biol. 1999, 288:255-274.
13. Hiratsuka T. Biochim. Biophys. Acta 1983, 742:496-508.
14. Talavera M.A., De La Cruz E.M. Biochemistry 2005, 44:959-970.
15. Kurzawa-Goertz S.E., Perreault-Micale C.L., Trybus K.M., Szent-Györgyi A.G., Geeves M.A. Biochemistry 1998, 37:7517-7525.
16. Forgacs E., Cartwright S., Kovacs M., Sakamoto T., Sellers J., Corrie J.E.T., Webb M.R., White H.D. Biochemistry 2006, 45:13035-13045.
17. Jameson D.M., Eccleston J.F. Methods Enzymol. 1997, 278:363-390.
18. Webb M.R., Reid G.P., Munasinghe V.R.N., Corrie J.E.T. Biochemistry 2004, 43:14463-14471.
19. Rensland H., Lautwein A., Wittinghofer A., Goody R.S. Biochemistry 1991, 30:11181-11185.
20. Eccleston J.F., Moore K.J.M., Brownbridge G.G., Webb M.R., Lowe P.N. Biochem Soc. Trans. 1991, 19:432-437.
21. Oiwa K., Eccleston J.F., Anson M., Kikumoto M., Davis C.T., Reid G.P., Ferenczi M.A., Corrie J.E.T., Yamada A., Nakayama H., Trentham D.R. Biophys. J. 2000, 78:3048-3071.
22. Ma Y.-Z., Taylor E.W. J. Biol. Chem. 1997, 272:717-723.
23. Hobbs J.B., Eckstein F. J. Org. Chem. 1977, 42:714-719.
24. Dillingham M.S., Wigley D.B., Webb M.R. Biochemistry 2002, 41:643-651.
25. Fischer C.J., Maluf N.K., Lohman T.M. J. Mol. Biol. 2004, 344:1287-1309.
26. Tomko E.J., Fischer C.J., Niedziela-Majka A., Lohman T.M. Mol. Cell 2007, 26:335-347.
27. Lucius A.L., Wong C.J., Lohman T.M. J. Mol. Biol. 2004, 339:731-750.
28. Martinez-Senac M.M., Webb M.R. Biochemistry 2005, 44:16967-16976.
29. Slatter A.F., Thomas C.D., Webb M.R. Biochemistry 2009, 48:6326-6334.
30. McClelland S.E., Dryden D.T.F., Szczelkun M.D. J. Mol. Biol. 2005, 348:895-915.
31. Firman K., Szczelkun M.D. EMBO J. 2000, 19:2094-2102.
32. Eggleston A.K., Rahim N.A., Kowalczykowski S.C. Nucleic Acids Res. 1996, 24:1179-1186.
33. Webb M.R. Proc. Natl. Acad. Sci. USA 1992, 89:4884-4887.
34. Charter N.W., Kauffman L., Singh R., Eglen R.M., Biomol J. J. Biomol. Screen. 2006, 11:390-399.
35. Brune M., Hunter J.L., Corrie J.E.T., Webb M.R. Biochemistry 1994, 33:8262-8271.
36. Okoh M.P., Hunter J.L., Corrie J.E.T., Webb M.R. Biochemistry 2006, 45:14764-14771.
37. Brune M., Corrie J.E.T., Webb M.R. Biochemistry 2001, 40:5087-5094.
38. Kunzelmann S., Webb M.R., Biol J. J. Biol. Chem. 2009, 284:33130-33138.
39. Dillingham M.S., Tibbles K.L., Hunter J.L., Bell J.C., Kowalczykowski S.C., Webb M.R. Biophys. J. 2008, 95:3330-3339.
40. Lohman T.M., Ferrari M.E. Annu. Rev. Biochem. 1994, 63:527-570.
41. Bujalowski W., Lohman T.M. Biochemistry 1986, 25:7799-7802.
42. Kunzelmann S., Morris C., Chavda A.P., Eccleston J.F., Webb M.R. Biochemistry 2010, 49:843-852.
43. Kuznetsov S.V., Kozlov A.G., Lohman T.M., Ansari A. J. Mol. Biol. 2006, 359:55-65.
44. Kozlov A.G., Lohman T.M. Biochemistry 2002, 41:11611-11627.
45. Roy R., Kozlov A.G., Lohman T.M., Ha T. Nature 2009, 461:1092-1097.
46. Witte G., Urbanke C., Curth U. Nucl. Acids Res. 2003, 31:4434-4440.
47. Cadman C.J., McGlynn P. Nucl. Acids Res. 2004, 32:6378-6387.
48. Genschel J., Curth U., Urbanke C. Biol. Chem. 2000, 381:183-192.
49. Webb M.R. Methods in Molecular Biology. Helicases: Methods and Protocols 2010, 13-27. Humana Press, Totowa, USA. M.M. Abdelhaleem (Ed.).
50. Lucius A.L., Maluf N.K., Fischer C.J., Lohman T.M. Biophys. J. 2003, 85:2224-2239.
51. Thoma N., Goody R.S. Kinetic Analysis of Macromolecules 2003, 153-170. Oxford University Press, Oxford. K.A. Johnson (Ed.).
52. Moore K.J., Lohman T.M. Biochemistry 1994, 33:14565-14578.
53. Eccleston J.F., Hutchinson J.P., White H.D. Protein Ligand Interactions: Structure and Spectroscopy. A Practical Approach Series 2001, 201-237. Oxford University Press, Oxford, UK. S.E. Harding, B.Z. Chowdry (Eds.).
54. Singleton M.R., Dillingham M.S., Wigley D.B. Annu. Rev. Biochem. 2007, 76:23-50.
55. Dillingham M.S., Soultanas P., Wiley P., Webb M.R., Wigley D.B. Proc. Natl. Acad. Sci. USA 2001, 98:8381-8387.
56. Soultanas P., Dillingham M.S., Papadopoulos F., Phillips S.E., Thomas C.D., Wigley D.B. Nucleic Acids Res. 1999, 27:1421-1428.
57. Niedziela-Majka A., Chesnik M.A., Tomko E.J., Lohman T.M. J. Biol. Chem. 2007, 282:27076-27085.
58. Iordanescu S., Bargonetti J. J. Bacteriol. 1989, 171:4501-4503.
59. Bird L.E., Brannigan J.A., Subramanya H.S., Wigley D.B. Nucleic Acids Res. 1998, 26:2686-2693.
60. Thomas C.D., Nikiforov T.T., Connolly B.A., Shaw W.V. J. Mol. Biol. 1995, 254:381-391.
61. Webb M.R. Kinetic Analysis of Macromolecules: A Practical Approach 2003, 131-152. Oxford University Press, Oxford, UK. K.A. Johnson (Ed.).
62. Corrie J.E.T. J. Chem. Soc. Perkin Trans. I 1994, 22:2975-2982.
63. R.J. Leatherbarrow, GraFit Version 6, Erithacus Software Ltd., Horley, UK.
64. Eccleston J.F., Martin S.R., Schilstra M.J. Methods in Cell Biology 2008, vol. 84:445-477. Academic Press, NY.
65. Kornberg A., Scott J.F., Bertsch L.L. J. Biol. Chem. 1978, 253:3298-3304.
66. Brune M., Hunter J.L., Howell S.A., Martin S.R., Hazlett T.L., Corrie J.E.T., Webb M.R. Biochemistry 1998, 37:10370-10380.
67. Webb M.R. Mol. Biosyst. 2007, 3:249-256.
68. Nixon A.E., Hunter J.L., Bonifacio G., Eccleston J.F., Webb M.R. Anal. Biochem. 1998, 265:299-307.
69. Spies M., Bianco P.R., Dillingham M.S., Handa N., Baskin R.J., Kowalczykowski S.C. Cell 2003, 114:647-654.
70. Sadhu A., Taylor E.W. J. Biol. Chem. 1992, 267:11352-11359.
71. He Z.-H., Chillingworth R.K., Brune M., Corrie J.E.T., Trentham D.R., Webb M.R., Ferenczi M.A. J. Physiol. 1997, 501:125-148.
72. Gilbert S.P., Webb M.R., Brune M., Johnson K.A. Nature 1995, 373:671-676.
73. White H.D., Belknap B., Webb M.R. Biochemistry 1997, 36:11828-11836.