Folding pathways of human telomeric type-1 and type-2 G-Quadruplex structures

Journal of the American Chemical Society

Volumn 132, Issue 42, 2010, Pages 14910-14918

  Mashimo, Tomoko ^a   Yagi, Hirotaka ^b   Sannohe, Yuta ^a   Rajendran, Arivazhagan ^a,d   Sugiyama, Hiroshi ^a,c,d  

^a KYOTO UNIVERSITY   (Japan)

^b NEC CORPORATION   (Japan)

^c KYOTO UNIVERSITY   (Japan)

^d JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AB INITIO METHOD; ANTI-CONFORMATIONS; BASE PAIRS; ELECTROSTATIC REPULSION; FOLDING PATHWAY; G-QUADRUPLEX STRUCTURE; G-QUADRUPLEXES; HAIRPIN CONFORMATION; HAIRPIN STRUCTURES; MOLECULAR DYNAMICS SIMULATIONS; STABILIZATION ENERGY;

BINDING ENERGY; MOLECULAR DYNAMICS;

CONFORMATIONS;

DEOXYGUANOSINE; GUANINE QUADRUPLEX;

AB INITIO CALCULATION; ARTICLE; BASE PAIRING; BINDING SITE; CONFORMATIONAL TRANSITION; ENERGY TRANSFER; HUMAN; MOLECULAR DYNAMICS; MOLECULAR STABILITY; PROTEIN FOLDING; TELOMERE; THEORETICAL MODEL;

BASE SEQUENCE; DNA PRIMERS; G-QUADRUPLEXES; HUMANS; MOLECULAR DYNAMICS SIMULATION; NUCLEIC ACID CONFORMATION; STATIC ELECTRICITY; TELOMERE; THERMODYNAMICS;

EID: 78649236626     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja105806u     Document Type: Article

References (37)

1. Verdun, R. E.; Karlseder. J. Nature 2007. 447, 924-931.
2. Makarov. V. L.; Hirose. Y.; Langmore, J. P. Cell 1997, 88, 657-666.
3. McElligott, R.; Wellinger, R. J. EMBO J. 1997, 16, 3705-3714.
4. Wright, W. E.; Tesmer, V. M.; Huffman, K. E.; Levene, S. D.; Shay, J. W. Genes Dev. 1997, 11, 2801-2809.
5. Harley, C. B.; Futeher, A. T.; Greider, C. W. Nature 1990, 345,458-460.
6. Kim, N. W.: Piatyszek, M. A.: Prowse, K. R.; Harley, C. B.; West, M. D.; Ho, P. L.; Covielllo, G. M.: Wright, W. E.; Weinrich, S. L.; Shay, J. W. Science 1994, 266, 2011-201.
7. Neidle, S.; Parkinson, G. Nat. Drug Discou. 2002, 1, 383-393.
8. Hurlev, L. H. Nat. Rev. Cancer 2002, 2, 188-200.
9. Mergny, J. L.: Helene, C. Nat. Med. 1998, 4, 1366-1367.
10. Shin-ya, K.; Wierzba, K.; Matsuo, K.; Ohtani, T.; Yamada, Y.; Furihata, K.; Hayakawa, Y.; Seto, H. J. Am. Chem. Soc. 2001, 123, 1262-1263.
11. da Silva, M. W. Chem-Eur. J. 2007, 13, 9738-9745.
12. Sannohe, Y.; Sugiyama, H. Carr. Protoc. Nucleic Acid Chem. 2010, 172, 1-17.
13. Yang, Y.; Patel, D. J. Structure 1993, 1, 263-282.
14. Parkinson, G. N.; Lee, M. P.; Neidle, S. Nature 2002, 417, 876-880.
15. Li, J.; Correia, J. J.; Wang, L.; Trent, J. O.; Chaires, J. B. Nucleic Acids Res. 2005, 33, 4649-4659.
16. Xu, Y.; Noguchi, Y.; Sugiyama, H. Bioorg. Med. Chem. 2006, 14, 5584-5591.
17. Luu, K. N.; Phan, A. T.; Kuryavyi, V.; Lacroix, L.; Patel, D. J. J. Am. Chem. Soc. 2006, 128, 9963-9970.
18. Ambrus, A.; Chen, D.; Dai, J.; Bialis, T.; Jones, R. A.; Yang, D. Nucleic Acids Res. 2006, 34, 2723-2735.
19. Phan, A. T.; Luu, K. N.; Patel, D. J. Nucleic Acids Res. 2006, 34, 5715-5719.
20. Dai, J.; Carver, M.; Punchihewa, C.; Jones, R. A.; Jones, R. A.; Yang, D. Nucleic Acids Res. 2007, 35, 4921-4940.
21. Okamoto, K.; Sannohe, Y.; Mashimo, T.; Sugiyama, H.; Terazima, M. Bioorg. Med. Chem. 2008, 16, 6873-6879.
22. Lim, K. W.; Amrane, S.; Bouaziz, S.; Xu, W.; Mu, Y.; Patel, D. J.; Luu, K. N.; Phan, A. T. J. Am. Chem. Soc. 2009, 131, 4301-4309.
23. Dai, J.; Carver, M.; Yang, D. Biochimie 2008, 90, 1172-1183.
24. Chaires, J. B. FEBS J. 2009, 277, 1098-1106.
25. Gray, R. D.; Chaires, J. B. Nucleic Acids Res. 2008, 36, 4191-4203.
26. Zhang, N.; Phan, A. T.; Patel, D. J. J. Am. Chem. Soc. 2005, 127, 17277-17285.
27. Xu, Y.; Sato, H.; Sannohe, Y.; Shinohara, K.; Sugiyama, H. J. Am. Chem. Soc. 2008, 130, 16470-16471.
28. Kim, M. G.; Zhurkin, V. B.; Jernigan, R. L.; Camerini-Otero, R. D. J. Mol. Biol. 1995, 247, 874-889.
29. Kitaura, K.; Ikeo, E.; Asada, T.; Nakano, T.; Uebayashi, M. Chem. Phys. Lett. 1999, 312, 701-709.
30. Nakano, T.; Kaminuma, Y.; Sato, T.; Akiyama, Y.; Uebayashi, M.; Kitaura, K. Chem. Phys. Lett. 2000, 318, 614-618.
31. Nakano, T.; Kaminuma, Y.; Sato, T.; Fukuzawa, K.; Akiyama, Y.; Uebayashi, M.; Kitaura, K. Chem. Phys. Lett. 2002, 351, 475-480.
32. Mashimo, T.; Sugiyama, H. Nucleic Acids Symp. Ser. (Oxford) 2007, 51, 239-240.
33. Mashimo, T.; Sannohe, Y.; Yagi, H.; Sugiyama, H. Nucleic Acids Symp. Ser. (Oxford) 2008, 409-410.
34. Dias, E.; Battiste, J. L.; Williamson, J. R. J. Am. Chem. Soc. 1994, 116, 4479-4470.
35. Shishikin, O. V.; Palamarchuk, G. V.; Gorb, L.; Leszczynski, J. J. Phys. Chem. B 2006, 110, 4413-4422.
36. Kosenkov, D.; Gorb, L.; Shishkin, O. V.; Sponer, J.; Leszczynski, J. J. Phys. Chem. B 2008, 112, 150-157.
37. Gorb, L.; Shishkin, O.; Leszczynski, J. J. Biomol. Struct. Dyn. 2005, 22, 441-454.