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DNA i-motif provides steel-like tough ends to chromosomes

  • Raghvendra P. Singh (a1) (a2), Ralf Blossey (a2) and Fabrizio Cleri (a1)


We studied the structure and mechanical properties of DNA i-motif nanowires by means of molecular dynamics computer simulations. We built up to 230 nm-long nanowires, based on a repeated TC5 sequence from NMR crystallographic data, fully relaxed and equilibrated in water. The unusual C●C+ stacked structure, formed by four ssDNA strands arranged in an intercalated tetramer, is here fully characterized both statically and dynamically. By applying stretching, compression and bending deformations with the steered molecular dynamics and umbrella sampling methods, we extract the apparent Young’s and bending moduli of the nanowire, as well as estimates for the tensile strength and persistence length. According to our results, i-motif nanowires share similarities with structural proteins, as far as their tensile stiffness, but are closer to nucleic acids and flexible proteins, as far as their bending rigidity is concerned. Curiously enough, their tensile strength makes such DNA fragments tough as mild steel or a nickel alloy. Besides their yet to be clarified biological significance, i-motif nanowires may qualify as interesting candidates for nanotechnology templates, due to such outstanding mechanical properties.



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1. Leroy, J. L., Gueron, M., Mergny, J. L. and Helene, C., Nucl. Acids Res. 22 (1994) 1600
2. Nonin, S. and Leroy, J. L., J. Mol. Biol. 261 (1996) 399
3. Phan, A. T. and Leroy, J. L., J. Biomol. Struct. Dyn. 17 (2000) 245
4. Jin, K. S., Shin, S. R., Ahn, B., Rho, Y., Kim, S. J. and Ree, M., J. Phys. Chem. B 113 (2009) 1852
5. Choi, J., Kim, S., Tachikawa, T., Fujitsuka, M. and Majima, T., J. Am. Chem. Soc. 133 (2011) 16146
6. Smiatek, J., Chen, C., Liu, D. and Heuer, A., J. Phys. Chem. B 115 (2011) 13788
7. Wang, Y., Li, X., Liu, X. and Li, T., Chem. Commun. (Cambr) 42 (2007) 4369
8. Peng, Y., Wang, X., Xiao, Y., Feng, L., Zhao, C. and Ren, J., J. Am. Chem. Soc. 131 (2009) 13813
9. Ren, X., He, F. and Xu, Q. H., Chem. Asian. J. 5 (2010) 1094
10. Wang, C., Du, Y., Wu, Q., Xuan, S., Zhou, J. and Song, J., Chem. Commun. (Cambr) 49 (2013) 5739
11. Fink, H. W. and Schonenberger, C., Nature 398 (1999) 407
12. Yan, H., Park, S. H., Finkelstein, G., Reif, J. H. and LaBean, T. H., Science 301 (2003) 1882
13. Singh, R. P., Blossey, R. and Cleri, F., Biophys. J. 105 (2013)
14. Rief, M., Gautel, M., Oesterhelt, F., Fernandez, J. M. and Gaub, H. E., Science 276 (1997) 1109
15. Isralewitz, B., Gao, M. and Schulten, K., Curr. Opin. Struct. Biol. 11 (2001) 224
16. Phillips, J. C. et al. ., J. Comput. Chem. 26 (2005) 1781
17. Kastner, J., J. Chem. Phys. 131 (2009) 034109
18. Smith, S. B., Cui, Y. and Bustamante, C., Science 271 (1996) 795
19. Gere, J. M. and Timoshenko, S. P., Mechanics of materials, Nelson Th., Cheltenham, UK, 1999.
20. Guo, K. et al. ., J. Am. Chem. Soc. 129 (2007) 10220
21. Khan, N., Avin, A., Tauler, R., Gonzalez, C., Eritja, R. and Gargallo, R., Biochimie 89 (2007) 1562
22. Sun, D. and Hurley, L. H., J. Med. Chem. 52 (2009) 2863
23. Jeanclos, E. et al. ., Hypertension 36 (2000) 195
24. Wang, Y. Y., Wang, H. Z., Xie, L. Y., Sui, K. X. and Zhang, Q.-Y., The Aging Male 14 (2010) 27
25. Hoffmann, J. and Spyridopoulos, I., Future Cardiology 7 (2011) 789


DNA i-motif provides steel-like tough ends to chromosomes

  • Raghvendra P. Singh (a1) (a2), Ralf Blossey (a2) and Fabrizio Cleri (a1)


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