Structure and mechanism of DNA topoisomerases

Annual Review of Biophysics and Biomolecular Structure

Volumn 24, Issue , 1995, Pages 185-208

  Wigley, Dale B ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

antibiotics; DNA gyrase; supercoiling

Indexed keywords

ANTIBIOTIC AGENT; BACTERIAL ENZYME; DNA TOPOISOMERASE; DNA TOPOISOMERASE (ATP HYDROLYSING); NOVOBIOCIN; VIRUS ENZYME;

DRUG BINDING; DRUG BINDING SITE; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME BINDING; ENZYME MECHANISM; ENZYME STRUCTURE; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; REVIEW;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0029098588     PISSN: 10568700     EISSN: None     Source Type: Book Series    
DOI: 10.1146/annurev.bb.24.060195.001153     Document Type: Review

References (38)

1. Ali JA, Jackson AP, Howells AJ, Maxwell A. 1993. The 43-kilodalton N-terminal fragment of the DNA gyrase B protein hydrolyzes ATP and binds coumarin drugs. Biochemistry 32: 2717-24
2. Bayliss SA, Dixon LK, Vydelingum S, Smith GL. 1992. African swine fever virus encodes a gene with extensive homology to type II DNA topoisomerases. J. Mol. Biol. 228:1003-10
3. Beese LS, Steitz TA. 1991. Structural basis for 3′-5′ exonuclease activity of E. coli DNA polymerase I: a two metal ion mechanism. EMBO J. 10:25-33
4. Brown PO, Peebles CL, Cozzarelli NR. 1979. A topoisomerase from E. coli related to DNA gyrase. Proc. Natl. Acad. Sci. USA 76:6110-14
5. Celia H, Hoermann L, Schultz P, Lebeau L, Mallouh V, et al. 1994. Three-dimensional model of E. coli gyrase B subunit crystallized in two-dimensions on novobiocin-linked phospholipid films. J. Mol. Biol. 236:618-28
6. Confalonieri F, Elie C, Nadal M, Bouthier de la Tour C, Forterre P, Duguet M. 1993. Reverse gyrase: a helicase-like domain and a type I topoisomerase in the same polypeptide. Proc. Natl. Acad. Sci. USA 90:4753-57
7. Drake FH, Zimmerman JP, McCabe FL, Bartus HF, Per SR, et al. 1987. Purification of topoisomerase II from amsacrine-resistant P388 leukemia cells. J. Biol. Chem. 262:16739-47
8. Gellert M, Mizuuchi K, O'Dea MH, Nash HA. 1976. DNA gyrase: an enzyme that introduces superhelical turns into DNA. Proc. Natl. Acad. Sci. USA. 73:3872-76
9. Jackson AP, Maxwell A. 1993. Identifying the catalytic residue of the ATPase reaction of DNA gyrase. Proc. Natl. Acad. Sci. USA. 90: 11232-36
10. Jackson AP, Maxwell A, Wigley DB. 1991. Preliminary crystallographic analysis of the ATP-hydrolysing domain of the E. coli DNA gyrase B protein. J. Mol. Biol. 217:15-17
11. Kato J, Nishimura Y, Imamura R, Niki H, Hiraga S, Suzuki H. 1990. New topoisomerase essential for chromosome segregation in E. coli. Cell 63: 393-404
12. Kikuchi A, Asai K. 1984. Reverse gyrase - a topoisomerase which introduces positive superhelical turns into DNA, Nature 309:677-81
13. Kirchhausen T, Wang JC, Harrison SC. 1985. DNA gyrase and its complexes with DNA: direct observation by electron microscopy. Cell 41: 933-43
14. Kreuger S, Zaccai G, Wlodawer A, Langowski J, O'Dea M, 1990. Neutron and light-scattering studies of DNA gyrase and its complex with DNA. J. Mol. Biol. 211:211-20
15. Lewis RJ, Singh OMP, Smith CV, Maxwell A, Skarzynski T, 1994. Crystallization of inhibitor complexes of an N-terminal fragment of the DNA gyrase B protein. J. Mol. Biol. 241:128-30
16. Lima CD, Wang JC, Mondragon A. 1993. Crystallization of a 67kDa fragment of E. coli DNA topoisomerase I. J. Mol. Biol. 232:1213-16
17. Lima CD, Wang JC, Mondragon A. 1994. Three-dimensional structure of the 67K N-terminal fragment of E. coli DNA topoisomerase I. Nature 367: 138-46
18. Liu LF. 1989. DNA topoisomerase poisons as antitumor drugs. Annu. Rev. Biochem. 58:351-75
19. Liu LF, Liu CC, Alberts BM. 1979. T4 DNA topoisomerase: a new ATP-dependent enzyme essential for initiation of T4 bacteriophage DNA replication. Nature 281:456-61
20. Lund K, Anderson AH, Christiansen K, Svejstrup JQ, Westergaard O. 1990. Minimal DNA requirement for topoisomerase II-mediated cleavage in vitro. J. Biol. Chem. 265:13856-63
21. Maxwell A. 1993. The interaction between coumarin drugs and DNA gyrase. Mol. Microbiol. 9:681-86
22. Mizuuchi K, O'Dea MH, Gellert M. 1978. DNA gyrase: subunit structure and ATPase activity of the purified enzyme. Proc. Natl. Acad. Sci. USA 75: 5960-63
23. Nakada N, Shimada H, Hirata T, Aoki Y, Kamiyaina T, et al. 1993. Biological characterization of cyclothialidine, a new DNA gyrase inhibitor. Antimicrob. Agents Chemother. 37:2656-61
24. Reece RJ, Dauter Z, Wilson KS, Maxwell A, Wigley DB. 1990. Preliminary crystallographic analysis of the breakage-reunion domain of the E. coli DNA A protein. J. Mol. Biol. 215:493-95
25. Reece RJ, Maxwell A. 1989. Tryptic fragments of the E. coli DNA gyrase A protein. J. Biol. Chem. 264:19648-53
26. Reece RJ, Maxwell A. 1991. The C-terminal domain of the E. coli DNA gyrase A subunit is a DNA-binding protein. Nucleic Acids Res. 19: 1399-1405
27. Roca J, Ishida R, Berger JM, Andoh T, Wang JC. 1994. Antitumor bisdioxopiperazines inhibit yeast DNA topoisomerase II by trapping the enzyme in the form of a closed protein clamp. Proc. Natl. Acad. Sci. USA 91: 1781-85
28. Roca J, Wang JC. 1992. The capture of a DNA double helix by an ATP-dependent protein clamp: a key step in DNA transport by type II topoisomerases. Cell 71:833-40
29. Roca J, Wang JC. 1994. DNA transport by a type II DNA topoisomerase: evidence in favor of a two-gate mechanism. Cell 77:609-16
30. Shaffer R, Traktman P. 1987. Vaccinia virus encapsidates a novel topoisomerase with the properties of a eukaryotic type I enzyme. J. Biol. Chem. 262: 9309-15
31. Shiozaki K, Yanagida M. 1991. A functional 125-kDa core polypeptide of fission yeast DNA topoisomerase II. Mol. Cell. Biol. 11:6093-6102
32. Shiozaki K, Yanagida M. 1992. Functional dissection of the phosphorylated termini of fission yeast DNA topoisomerase II. J. Cell. Biol. 119: 1023-36
33. Shuman S, Prescott J. 1990. Specific DNA cleavage and binding by vaccinia virus DNA topoisomerase. J. Biol. Chem. 265:17826-36
34. Slesarev AI, Stetter KO, Lake JA, Gellert M, Krah R, Kozyavkin SA. 1993. DNA topoisomerase V is a relative of eukaryotic topoisomerase I from a hyperthermophilic prokaryote. Nature 364:735-37
35. Sugino A, Higgins NP, Brown PO, Peebles CL, Cozzarelli NR. 1978. Energy coupling in DNA gyrase and the mechanism of action of novobiocin. Proc. Natl. Acad. Sci. USA 75: 4838-42
36. Tamura JK, Gellert M. 1990. Characterization of the ATP-binding site on E. coli DNA gyrase. Affinity labeling of lys-103 and lys-110 of the B subunit by pyridoxal 5′- diphospho-5′-adenosine J. Biol. Chem. 265:21342-49
37. Wang JC. 1971. Interaction between DNA and an E. coli protein, ω. J. Mol. Biol. 55:523-33
38. Wigley DB, Davies GJ, Dodson EJ, Maxwell A, Dodson GG. 1991. Crystal structure of an N-terminal fragment of the DNA gyrase B protein. Nature 351:624-29