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A normalized root‐mean‐spuare distance for comparing protein three‐dimensional structures
Open accessAbstract
The degree of similarity of two protein three‐dimensional structures is usually measured with the root‐mean‐square distance between equivalent atom pairs. Such a similarity measure depends on the dimension of the proteins, that is, on the number of equivalent atom pairs. The present communication presents a simple procedure to make the root‐mean‐square distances between pairs of three‐dimensional structures independent of their dimensions. This normalization may be useful in evolutionary and fold classification studies as well as in simple comparisons between different structural models.
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Cited by
Scoring function for automated assessment of protein structure template quality
Zhang, Y., & Skolnick, J. (2004) · Proteins: Structure, Function, and Bioinformatics · doi:10.1002/prot.20264 · Cited by 2,392
Protein–protein interaction and quaternary structure
Janin, J., Bahadur, R. P., & Chakrabarti, P. (2008) · Quarterly Reviews of Biophysics · doi:10.1017/s0033583508004708 · Cited by 398
Ghahremanian, S., Rashidi, M. M., Raeisi, K., & Toghraie, D. (2022) · Journal of Molecular Liquids · doi:10.1016/j.molliq.2022.118901 · Cited by 299
(2024) · doi:10.1093/bib/bbae324 · Cited by 19
Turzo, S. M. B. A., Seffernick, J. T., Lyskov, S., & Lindert, S. (2023) · Briefings in Bioinformatics · doi:10.1093/bib/bbad308 · Cited by 13
Metadata
- Authors
- Carugo, O., & Pongor, S.
- Venue
- Protein Science
- Publisher
- Wiley
- Published
- 2001-07
- Volume
- 10
- Issue
- 7
- Pages
- 1470-1473
- ISSN
- 0961-8368 (ISSN-L)
- 1469-896X
- OpenAlex
- W2063581254
- Cited by
- 412
- References
- 0
- FWCI
- 1.30
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Carugo, O., & Pongor, S. (2001). A normalized root‐mean‐spuare distance for comparing protein three‐dimensional structures. Protein Science. https://doi.org/10.1110/ps.690101
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