Conformational analysis of canonical 2-deoxyribonucleotides. 2. Purine nucleotides

Journal of Biomolecular Structure and Dynamics

Volumn 22, Issue 2, 2004, Pages 227-243

  Shishkin, Oleg V ^a,b   Gorb, Leonid ^b   Zhikol, Oleg A ^a   Leszczynski, Jerzy ^b  

^a INSTITUTE FOR SCINTILLATION MATERIALS   (Ukraine)

^b JACKSON STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYADENOSINE PHOSPHATE; DEOXYGUANOSINE PHOSPHATE; DEOXYRIBONUCLEOTIDE; NUCLEIC ACID BASE; PHOSPHATE; PURINE NUCLEOSIDE;

ANALYTIC METHOD; ARTICLE; CONFORMATIONAL TRANSITION; DENSITY; ELECTRON TRANSPORT; GEOMETRY; HYDROGEN BOND; MOLECULAR INTERACTION; PRIORITY JOURNAL; STRUCTURE ANALYSIS;

EID: 4444325243     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.2004.10506998     Document Type: Article

References (61)

1. Saenger, W., 1988. Principles of Nucleic Acid Structures. New York:Springer.
2. Neidle, S., 1994. DNA Structure and Recognition. Oxford:Oxford University Press.
3. Sinden, R. S., 1994. DNA Structure and Function. San Diego:Academic Press.
4. Rivas, L., Sanchez-Cortes, S., and Garcia-Ramos, J. V., 2002. Phys. Chem. Chem. Phys., 4:1943
5. Young, D. W., Tollin, P., and Wilson, H. R., 1974. Acta Cryst., B30:2012
6. Sato, T., 1984. Acta Cryst., C40:738
7. Reddy, B. S., and Viswamitra, M. A., 1975. Acta Cryst., B31:19
8. Sugawara, Y., Nakamura, A., Iimura, Y., Kobayashi, K., and Urabe, H., 2002. J. Phys. Chem., B106:10363
9. Jardetsky, O., and Roberts, G. C. K., 1981. NMR in Molecular Biology. New York:Academic Press.
10. Lakshminarayanan, A. V., and Sasisekharan, V., 1970. Biochym. Biophys. Acta, 204:49
11. Olson, W. K., and Flory, P. J., 1972. Biopolymers, 11:25
12. Yathindra, N., and Sundaralingham, M., 1973. Biopolymers, 12:2075
13. Pullman, B., and Saran, A., 1976. Progress in Nucleic Acid Research and Molecular Biology Edited by:Cohn, W. E., Vol. 18, 215New York:Academic Press.
14. Leulliot, N., Ghomi, M., Scalmani, G., and Berthier, G., 1999. J. Phys. Chem., A103:8716
15. Foloppe, N., and MacKerell, A., 1998. J. Phys. Chem., B102:6669
16. Foloppe, N., Hartmann, B., Nilsson, L., and MacKerell, A. F., Jr. 2003. Biophys. J., 82:1554
17. Leulliot, N., Ghomi, M., Scalmani, G., and Berthier, G., 1999. J. Phys. Chem., A103:8716
18. Leulliot, N., Ghomi, M., Jobic, H., Bouloussa, O., Baumruk, V., and Coulombeau, C., 1999. J. Phys. Chem., B103:10934
19. Hocquet, A., Leulliot, N., and Ghomi, M., 2000. J. Phys. Chem., B104:4560
20. Foloppe, N., and MacKerell, A. D., Jr. 1999. Biophys. J., 76:3206
21. Gaigeot, M. P., Leulliot, N., Ghomi, M., Jobic, H., Colombeau, C., and Bouloussa, O., 2000. Chem. Phys., 261:217
22. Shishkin, O. V., Pelmenschikov, A., Hovorun, D. M., and Leszczynski, J., 2000. J. Mol. Struct., 526:329
23. Hocquet, A., 2001. Phys. Chem. Chem. Phys., 3:3192
24. Leszczynski, J., 1992. Int. J. Quantum Chem., 19:43
25. Sponer, J., and Hobza, P., 1994. J. Am. Chem. Soc., 116:709
26. Sponer, J., and Hobza, P., 1994. J. Phys. Chem., 98:3161
27. Shishkin, O. V., 1998. J. Mol. Struct., 447:1
28. Shishkin, O. V., Gorb, L., Hobza, P., and Leszczynski, J., 2000. Int. J. Quantum Chem., 80:1116
29. Shishkin, O. V., Gorb, L., and Leszczynski, J., 2000. Chem. Phys. Lett., 330:603
30. Shishkin, O. V., Sukhanov, O. S., Gorb, L., and Leszczynski, J., 2002. Phys. Chem. Chem. Phys., 4:5359
31. Sukhanov, O. S., Shishkin, O. V., Gorb, L., Podolyan, Y., and Leszczynski, J., 2003. J. Phys. Chem. B, 107:2846
32. Hobza, P., 1998. J. Sponer, Chem. Phys. Lett., 288:7
33. Hohenberg, P., and Kohn, W., 1964. Phys. Rev., B136:864
34. Parr, R. G., and Yang, W., 1989. Density Functional Theory of Atoms and Molecules. New York:Oxford University Press.
35. Becke, A. D., 1988. Phys. Rev., A38:3098
36. Becke, A. D., 1993. J. Chem. Phys., 98:5648
37. Lee, C., Yang, W., and Parr, R. G., 1988. Phys. Rev., B37:785
38. Hehre, W. J., Radom, L., Schleyer, P. v.R., and Pople, J. A., 1986. Ab Initio Molecular Orbital Theory. New York:Wiley.
39. Bader, R. W., 1990. Atoms in Molecules. A Quantum Theory 436Oxford:Calendon Press.
40. Frisch, M. J., Trucks, G. W., Schlegel, H. B., Scuseria, G. E., Robb, M. A., Cheeseman, J. R., Zakrzewski, V. G., Montgomery, J. A., Jr., Stratmann, R. E., Burant, J. C., Dapprich, S., Millam, J. M., Daniels, A. D., Kudin, K. N., Strain, M. C., Farkas, O., Tomasi, J., Barone, V., Cossi, M., Cammi, R., Mennucci, B., Pomelli, C., Adamo, C., Clifford, S., Ochterski, J., Petersson, G. A., Ayala, P. Y., Cui, Q., Morokuma, K., Malick, D. K., Rabuck, A. D., Raghavachari, K., Foresman, J. B., Cioslowski, J., Ortiz, J. V., Baboul, A. G., Stefanov, B. B., Liu, G., Liashenko, A., Piskorz, P., Komaromi, I., Gomperts, R., Martin, R. L., Fox, D. J., Keith, T., Al-Laham, M. A., Peng, C. Y., Nanayakkara, A., Challacombe, M., Gill, P. M. W., Johnson, B., Chen, W., Wong, M. W., Andres, J. L., Gonzalez, C., Head-Gordon, M., Replogle, E. S., and Pople, J. A., 1998. Gaussian 98, Revision A.9 Pittsburgh PA:Gaussian Inc.
41. Shishkin, O. V., Gorb, L., Zhikol, O. A., and Leszczynski, J., 2004. J. Biomol. Struct. Dyn., 21:537
42. Jalluri, R. K., Yuh, Y. H., and Taylor, E. W., 1993. The Anomeric Effect and Associated Stereoelectronic Effects. Edited by:Thatcher, G. R.J., Washington:ACS.
43. Meints, G. A., Karlsson, T., and Drobny, G. P., 2001. J. Am. Chem. Soc., 123:10030
44. Foloppe, N., and MacKerell, A. D., Jr. 1998. J. Phys. Chem., B102:6669
45. Nowak, M. J., Lapinski, L., Kwiatkowski, J. S., and Leszczynski, J., 1997. Computational Chemistry:Reviews of Current Trends Edited by:Leszczynski, J., 140Singapore:World Scientific.
46. Sponer, J., Leszczynski, J., and Hobza, P., 2002. Biopolymers, 61:3
47. Sponer, J., and Hobza, P., 1999. Chem. Rev., 99:3247
48. Bludsky, O., Sponer, J., Leszczynski, J., Spirko, V., and Hobza, P., 1996. J. Chem. Phys., 105:11042
49. Gorb, L., and Leszczynski, J., 1998. J. Am. Chem. Soc., 120:5024
50. Seshadri, T. P., and Wiswamitra, M. A., 1974. Pramana, 3:218
51. Hartmann, B., and Lavery, R., 1996. Quart. Rev. Bioph., 29:309
52. Desiraju, G. R., and Steiner, T., eds. 2001. The Weak Hydrogen Bond in Structurak Chemistry and Biology IUCr Monographs on Crystallography. New York:Oxford University Press.
53. Hobza, P., and Havlas, Z., 2000. Chem. Rev., 100:4253
54. Alonso, J. L., Antonlinez, S., Blanco, S., Lesarri, A., Lopez, J. C., and Caminati, W., 2004. J. Am. Chem. Soc., 126:3244
55. Swamy, K. C. K., Kumaraswamy, S., and Kommana, P., 2001. J. Am. Chem. Soc., 123:12642
56. Olson, W. K., 1973. Biopolymers, 12:1787
57. Son, T.-D., Gueschlbauer, W., and Gueron, M., 1972. J. Am. Chem. Soc., 94:7903
58. Wang, A. H.-J., Quigley, G. J., Kolpak, F. J., Crawford, J. L., van Boom, J. H., van der Marel, G., and Rich, A., 1979. Nature, 282:680
59. Yathindra, N., and Sundaralingham, M., 1973. Biopolymers, 12:2075
60. Altona, C., and Sundaralingam, M., 1973. J. Am. Chem. Soc., 95:2333
61. Davies, D. B., 1978. Prog. Nucl. Magn. Reson. Spectrosc., 12:135