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Geometric Parameters in Nucleic Acids: Nitrogenous Bases
Abstract
We present estimates of the bond-length and bond-angle parameters for the nitrogenous base side groups of nucleic acids. These values are the result of a statistical survey of small molecules in the Cambridge Structural Database for which high-resolution X-ray and neutron crystal structures are available. The statistics include arithmetic means and standard deviations for the different samples, as well as comparisons of the population distributions for sugar- and non-sugar-derivatized bases. These accumulated data provide appropriate target values for refinements of oligonucleotide structures, as well as sets of standard atomic coordinates for the five common bases.
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Cited by
Berman, H. M. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.1.235 · Cited by 40,196
Self-citationLiebschner, D., Afonine, P. V., Baker, M. L., Bunkóczi, G., Chen, V. B., Croll, T. I., Hintze, B., Hung, L.-W., Jain, S., McCoy, A. J., et al. (2019) · Acta Crystallographica Section D Structural Biology · doi:10.1107/s2059798319011471 · Cited by 7,953
Self-citationBerman, H. M., Battistuz, T., Bhat, T. N., Bluhm, W. F., Bourne, P. E., Burkhardt, K., Feng, Z., Gilliland, G. L., Iype, L., Jain, S., et al. (2002) · Acta Crystallographica Section D Biological Crystallography · doi:10.1107/s0907444902003451 · Cited by 2,577
Self-citationDevelopment and current status of the CHARMM force field for nucleic acids
MacKerell, A. D., Banavali, N., & Foloppe, N. (2000) · Biopolymers · doi:10.1002/1097-0282(2000)56:4<257::aid-bip10029>3.0.co;2-w · Cited by 1,077
The Protein Data Bank: unifying the archive
Westbrook, J. (2002) · Nucleic Acids Research · doi:10.1093/nar/30.1.245 · Cited by 309
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Metadata
- Authors
- Clowney, L., Jain, S. C., Srinivasan, A. R., Westbrook, J., Olson, W. K., & Berman, H. M.
- Venue
- Journal of the American Chemical Society
- Publisher
- American Chemical Society (ACS)
- Published
- 1996-01-01
- Volume
- 118
- Issue
- 3
- Pages
- 509-518
- ISSN
- 0002-7863 (ISSN-L)
- 1520-5126
- OpenAlex
- W2139544554
- Cited by
- 188
- References
- 0
- FWCI
- 2.97
- Type
- journal article
- Language
- en
- Open access
- closed
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- Clowney, L., Jain, S. C., Srinivasan, A. R., Westbrook, J., Olson, W. K., & Berman, H. M. (1996). Geometric Parameters in Nucleic Acids: Nitrogenous Bases. Journal of the American Chemical Society. https://doi.org/10.1021/ja952883d
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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