The DOI matches its Crossref record; 25 of the 25 references it cites were found in a registry or an index.
Small-world view of the amino acids that play a key role in protein folding
Abstract
We use geometrical considerations to provide a different perspective on the fact that a few selected amino acids, the so-called "key residues," act as nucleation centers for protein folding. By constructing graphs corresponding to protein structures we show that they have the "small-world" feature of having a limited set of vertices with large connectivity. These vertices correspond to the key residues that play the role of "hubs" in the network of interactions that stabilize the structure of the transition state.
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Citations
Cites
Collective dynamics of ‘small-world’ networks
Watts, D. J., & Strogatz, S. H. (1998) · Nature · doi:10.1038/30918 · Cited by 43,060
Berman, H. M. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.1.235 · Cited by 40,196
Emergence of Scaling in Random Networks
Barabási, A.-L., & Albert, R. (1999) · Science · doi:10.1126/science.286.5439.509 · Cited by 36,135
Savitzky-Golay Smoothing Filters
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A Set of Measures of Centrality Based on Betweenness
Freeman, L. C. (1977) · Sociometry · doi:10.2307/3033543 · Cited by 10,295
The structure of scientific collaboration networks
Newman, M. E. J. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.98.2.404 · Cited by 4,482
Diameter of the World-Wide Web
Albert, R., Jeong, H., & Barabási, A.-L. (1999) · Nature · doi:10.1038/43601 · Cited by 4,260
Classes of small-world networks
Amaral, L. A. N., Scala, A., Barthélémy, M., & Stanley, H. E. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.200327197 · Cited by 3,051
Structure and Mechanism in Protein Science: A Guide to Enzyme Catalysis and Protein Folding
Fersht, A. (2017) · Series in Structural Biology · doi:10.1142/10574 · Cited by 2,039
Weak trophic interactions and the balance of nature.
McCann, K., Hastings, A., & Huxel, G. R. (1998) · Nature · doi:10.1038/27427 · Cited by 1,657
Cited by
Watts, D. J. (2004) · Annual Review of Sociology · doi:10.1146/annurev.soc.30.020404.104342 · Cited by 1,163
Network Analysis of Protein Structures Identifies Functional Residues
Amitai, G., Shemesh, A., Sitbon, E., Shklar, M., Netanely, D., Venger, I., & Pietrokovski, S. (2004) · Journal of Molecular Biology · doi:10.1016/j.jmb.2004.10.055 · Cited by 499
Controlling Allosteric Networks in Proteins
Dokholyan, N. V. (2016) · Chemical Reviews · doi:10.1021/acs.chemrev.5b00544 · Cited by 260
Self-citationThe modular architecture of protein–protein binding interfaces
Reichmann, D., Rahat, O., Albeck, S., Meged, R., Dym, O., & Schreiber, G. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407280102 · Cited by 239
Verkhivker, G. M., Agajanian, S., Hu, G., & Tao, P. (2020) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2020.00136 · Cited by 76
Metadata
- Authors
- Vendruscolo, M., Dokholyan, N. V., Paci, E., & Karplus, M.
- Venue
- Physical Review E
- Publisher
- American Physical Society (APS)
- Published
- 2002-06-25
- Volume
- 65
- Issue
- 6
- Pages
- 061910-061910
- ISSN
- 1063-651X (ISSN-L)
- 1095-3787
- OpenAlex
- W2153953580
- Cited by
- 384
- References
- 25
- FWCI
- 4.75
- Type
- journal article
- Language
- en
- Open access
- closed
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- Vendruscolo, M., Dokholyan, N. V., Paci, E., & Karplus, M. (2002). Small-world view of the amino acids that play a key role in protein folding. Physical Review E. https://doi.org/10.1103/physreve.65.061910
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Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
