Consequences of cisplatin binding on nucleosome structure and dynamics

Chemistry and Biology

Volumn 17, Issue 12, 2010, Pages 1334-1343

  Todd, Ryan C ^a   Lippard, Stephen J ^a  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANTINEOPLASTIC AGENT; BACTERIOPHAGE T7 RNA POLYMERASE; CISPLATIN; DNA; DNA DIRECTED RNA POLYMERASE; VIRUS PROTEIN;

ARTICLE; CHEMISTRY; DNA ADDUCT; GENETIC TRANSCRIPTION; GENETICS; METABOLISM; MOLECULAR DYNAMICS; NUCLEOSOME; PROTEIN BINDING; X RAY CRYSTALLOGRAPHY;

ANTINEOPLASTIC AGENTS; CISPLATIN; CRYSTALLOGRAPHY, X-RAY; DNA; DNA ADDUCTS; DNA-DIRECTED RNA POLYMERASES; MOLECULAR DYNAMICS SIMULATION; NUCLEOSOMES; PROTEIN BINDING; TRANSCRIPTION, GENETIC; VIRAL PROTEINS;

EUKARYOTA;

EID: 78650424297     PISSN: 10745521     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.chembiol.2010.10.018     Document Type: Article

References (56)

1. 195Pt NMR kinetic and mechanistic studies of cis- and trans-diamminedichloroplatinum(II) binding to DNA J. Am. Chem. Soc. 112 1990 6860 6871
2. Y. Bao, C.L. White, and K. Luger Nucleosome core particles containing a poly(dA·dT) sequence element exhibit a locally distorted DNA structure J. Mol. Biol. 361 2006 617 624
3. F.A. Blommaert, H.C.M. van Dijk-Knijnenburg, F.J. Dijt, L. den Engelse, R.A. Baan, F. Berends, and A.M.J. Fichtinger-Schepman Formation of DNA adducts by the anticancer drug carboplatin: different nucleotide sequence preferences in vitro and in cells Biochemistry 34 1995 8474 8480
4. G.J. Bosl, and R.J. Motzer Testicular germ-cell cancer N. Engl. J. Med. 337 1997 242 253
5. G.L. Cohen, J.A. Ledner, W.R. Bauer, H.M. Ushay, C. Caravana, and S.J. Lippard Sequence dependent binding of cis-dichlorodiammineplatinum(II) to DNA J. Am. Chem. Soc. 102 1980 2487 2488
6. A.J. Danford, D. Wang, Q. Wang, T.D. Tullius, and S.J. Lippard Platinum anticancer drug damage enforces a particular rotational setting of DNA in nucleosomes Proc. Natl. Acad. Sci. USA 102 2005 12311 12316
7. C.A. Davey, D.F. Sargent, K. Luger, A.W. Maeder, and T.J. Richmond Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 resolution J. Mol. Biol. 319 2002 1097 1113
8. 2] Indian J. Chem. 8 1970 193 194
9. P.N. Dyer, R.S. Edayathumangalam, C.L. White, Y. Bao, S. Chakravarthy, U.M. Muthurajan, and K. Luger Reconstitution of nucleosome core particles from recombinant histones and DNA Methods Enzymol. 375 2004 23 44
10. A. Flaus, and T. Owen-Hughes Mechanisms for ATP-dependent chromatin remodelling Curr. Opin. Genet. Dev. 11 2001 148 154
11. A.M. Galea, and V. Murray The interaction of cisplatin and analogues with DNA in reconstituted chromatin Biochim. Biophys. Acta 1579 2002 142 152
12. A.M. Galea, and V. Murray The influence of chromatin structure on DNA damage induced by nitrogen mustard and cisplatin analogues Chem. Biol. Drug Des. 75 2010 578 589
13. A. Gelasco, and S.J. Lippard NMR solution structure of a DNA dodecamer duplex containing a cis-diammineplatinum(II) d(GpG) intrastrand cross-link, the major adduct of the anticancer drug cisplatin Biochemistry 37 1998 9230 9239
14. J.M. Gottesfeld, J.M. Belitsky, C. Melander, P.B. Dervan, and K. Luger Blocking transcription through a nucleosome with synthetic DNA ligands J. Mol. Biol. 321 2002 249 263
15. J.J. Hayes, and W.M. Scovell cis-Diamminedochloroplatinum(II) modified chromatin and nucleosome core particle probed with DNase I Biochim. Biophys. Acta 1088 1991 413 418
16. B. He, A. Kukarin, D. Temiakov, S.T. Chin-Bow, D.L. Lyakhov, M. Rong, R.K. Durbin, and W.T. McAllister Characterization of an unusual, sequence-specific termination signal for T7 RNA polymerase J. Biol. Chem. 273 1998 18802 18811
17. E.R. Jamieson, and S.J. Lippard Structure, recognition, and processing of cisplatin-DNA adducts Chem. Rev. 99 1999 2467 2498
18. Y. Jung, and S.J. Lippard Multiple states of stalled T7 RNA polymerase at DNA lesions generated by platinum anticancer agents J. Biol. Chem. 278 2003 52084 52092
19. Y. Jung, and S.J. Lippard Direct cellular responses to platinum-induced DNA damage Chem. Rev. 107 2007 1387 1407
20. M. Kartalou, and J.M. Essigmann Mechanisms of resistance to cisplatin Mutat. Res. 478 2001 23 43
21. H.M. Keys, B.N. Bundy, F.B. Stehman, L.I. Muderspach, W.E. Chafe, C.L. Suggs III, J.L. Walker, and D. Gersell Cisplatin, radiation, and adjuvant hysterectomy compared with radiation and adjuvant hysterectomy for bulky stage IB cervical carcinoma N. Engl. J. Med. 340 1999 1154 1161
22. M.L. Kireeva, W. Walter, V. Tschernajenko, V.A. Bondarenko, M. Kashlev, and V.M. Studitsky Nucleosome remodeling induced by RNA polymerase II: loss of the H2A/H2B dimer during transcription Mol. Cell 9 2002 541 552
23. N. Kirov, I. Tsaneva, E. Einbinder, and R. Tsanev In vitro transcription through nucleosomes by T7 RNA polymerase EMBO J. 11 1992 1941 1947
24. R.D. Kornberg, and Y. Lorch Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome Cell 98 1999 285 294
25. R. Lavery, M. Moakher, J.H. Maddocks, D. Petkeviciute, and K. Zakrzewska Conformational analysis of nucleic acids revisited: Curves+ Nucleic Acids Res. 37 2009 5917 5929
26. S.J. Lippard, and J.D. Hoeschele Binding of cis- and trans- dichlorodiammineplatinum(II) to the nucleosome core Proc. Natl. Acad. Sci. USA 76 1979 6091 6095
27. P.J. Loehrer, and L.H. Einhorn Drugs five years later: cisplatin Ann. Intern. Med. 100 1984 704 713
28. K. Luger, A.W. Mäder, R.K. Richmond, D.F. Sargent, and T.J. Richmond Crystal structure of the nucleosome core particle at 2.8 resolution Nature 389 1997 251 260
29. K. Luger Dynamic nucleosomes Chromosome Res. 14 2006 5 16
30. L.E. Macdonald, Y. Zhou, and W.T. McAllister Termination and slippage by bacteriophage T7 RNA polymerase J. Mol. Biol. 232 1993 1030 1047
31. F. Mohammad-Rafiee, I.M. Kulić, and H. Schiessel Theory of nucleosome corkscrew sliding in the presence of synthetic DNA ligands J. Mol. Biol. 344 2004 47 58
32. M. Morris, P.J. Eifel, J. Lu, P.W. Grigsby, C. Levenback, R.E. Stevens, M. Rotman, D.M. Gershenson, and D.G. Mutch Pelvic radiation and concurrent chemotherapy compared with pelvic and para-aortic radiation for high-risk cervical cancer N. Engl. J. Med. 340 1999 1137 1143
33. J.S. Mymryk, E. Zaniewski, and T.K. Archer Cisplatin inhibits chromatin remodeling, transcription factor binding, and transcription from the mouse mammary tumor virus promoter in vivo Proc. Natl. Acad. Sci. USA 92 1995 2076 2080
34. G.A. Nacheva, and A. Berzal-Herranz Preventing nondesired RNA-primed RNA extension catalyzed by T7 RNA polymerase Eur. J. Biochem. 270 2003 1458 1465
35. M. Ober, and S.J. Lippard Cisplatin damage overrides the predefined rotational setting of positioned nucleosomes J. Am. Chem. Soc. 129 2007 6278 6286
36. M. Ober, and S.J. Lippard A 1,2-d(GpG) cisplatin intrastrand cross-link influences the rotational and translational setting of DNA in nucleosomes J. Am. Chem. Soc. 130 2008 2851 2861
37. Y.-J. Park, J.V. Chodaparambil, Y. Bao, S.J. McBryant, and K. Luger Nucleosome assembly protein 1 exchanges histone H2A-H2B dimers and assists nucleosome sliding J. Biol. Chem. 280 2005 1817 1825
38. S. Pennings, G. Meersseman, and E.M. Bradbury Mobility of positioned nucleosomes on 5 S rDNA J. Mol. Biol. 220 1991 101 110
39. D. Reinberg, and R.J. Sims III deFACTo nucleosome dynamics J. Biol. Chem. 281 2006 23297 23301
40. M. Rong, R.K. Durbin, and W.T. McAllister Template strand switching by T7 RNA polymerase J. Biol. Chem. 273 1998 10253 10260
41. B. Rosenberg, L. Van Camp, and T. Krigas Inhibition of cell division in Escherichia coli by electrolysis products from a platinum electrode Nature 205 1965 698 699
42. B. Rosenberg, L. Van Camp, J.E. Trosko, and V.H. Mansour Platinum compounds: a new class of potent antitumour agents Nature 222 1969 385 386
43. E.T. Schenborn, and R.C. Mierendorf Jr. A novel transcription property of SP6 and T7 RNA polymerases: dependence on template structure Nucleic Acids Res. 13 1985 6223 6236
44. E. Segal, Y. Fondufe-Mittendorf, L. Chen, A. Thström, Y. Field, I.K. Moore, J.-P.Z. Wang, and J. Widom A genomic code for nucleosome positioning Nature 442 2006 772 778
45. V.M. Studitsky, D.J. Clark, and G. Felsenfeld A histone octamer can step around a transcribing polymerase without leaving the template Cell 76 1994 371 382
46. V.M. Studitsky, D.J. Clark, and G. Felsenfeld Overcoming a nucleosomal barrier to transcription Cell 83 1995 19 27
47. V.M. Studitsky, G.A. Kassavetis, E.P. Geiduschek, and G. Felsenfeld Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase Science 278 1997 1960 1963
48. J.-M. Teuben, C. Bauer, A.H.-J. Wang, and J. Reedijk Solution structure of a DNA duplex containing a cis-diammineplatinum(II) 1,3-d(GTG) intrastrand cross-link, a major adduct in cells treated with the anticancer drug carboplatin Biochemistry 38 1999 12305 12312
49. A. Thström, P.T. Lowary, and J. Widom Measurement of histone-DNA interaction free energy in nucleosomes Methods 33 2004 33 44
50. R.C. Todd, and S.J. Lippard Inhibition of transcription by platinum antitumor compounds Metallomics 1 2009 280 291
51. W. Walter, and V.M. Studitsky Construction, analysis, and transcription of model nucleosomal templates Methods 33 2004 18 24
52. D. Wang, R. Hara, G. Singh, A. Sancar, and S.J. Lippard Nucleotide excision repair from site-specifically platinum-modified nucleosomes Biochemistry 42 2003 6747 6753
53. D. Wang, and S.J. Lippard Cellular processing of platinum anticancer drugs Nat. Rev. Drug Discov. 4 2005 307 320
54. J.L. Workman Nucleosome displacement in transcription Genes Dev. 20 2006 2009 2017
55. B. Wu, and C.A. Davey Platinum drug adduct formation in the nucleosome core alters nucleosome mobility but not positioning Chem. Biol. 15 2008 1023 1028
56. B. Wu, P. Dröge, and C.A. Davey Site selectivity of platinum anticancer therapeutics Nat. Chem. Biol. 4 2008 110 112