Relating three-dimensional structures to protein networks provides evolutionary insights.

by: PM Kim, LJ Lu, Y Xia, MB Gerstein

Science, Vol. 314, No. 5807. (22 December 2006), pp. 1938-1941.

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摘要

Most studies of protein networks operate on a high level of abstraction, neglecting structural and chemical aspects of each interaction. Here, we characterize interactions by using atomic-resolution information from three-dimensional protein structures. We find that some previously recognized relationships between network topology and genomic features (e.g., hubs tending to be essential proteins) are actually more reflective of a structural quantity, the number of distinct binding interfaces. Subdividing hubs with respect to this quantity provides insight into their evolutionary rate and indicates that additional mechanisms of network growth are active in evolution (beyond effective preferential attachment through gene duplication).

@article{citeulike:1016800, abstract = {Most studies of protein networks operate on a high level of abstraction, neglecting structural and chemical aspects of each interaction. Here, we characterize interactions by using atomic-resolution information from three-dimensional protein structures. We find that some previously recognized relationships between network topology and genomic features (e.g., hubs tending to be essential proteins) are actually more reflective of a structural quantity, the number of distinct binding interfaces. Subdividing hubs with respect to this quantity provides insight into their evolutionary rate and indicates that additional mechanisms of network growth are active in evolution (beyond effective preferential attachment through gene duplication).}, address = {Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.}, author = {Kim, P. M. and Lu, L. J. and Xia, Y. and Gerstein, M. B. }, citeulike-article-id = {1016800}, doi = {10.1126/science.1136174}, issn = {1095-9203}, journal = {Science}, keywords = {network, structure}, month = {December}, number = {5807}, pages = {1938--1941}, posted-at = {2008-02-15 03:11:29}, priority = {2}, title = {Relating three-dimensional structures to protein networks provides evolutionary insights.}, url = {http://dx.doi.org/10.1126/science.1136174}, volume = {314}, year = {2006} }

RIS record

TY - JOUR ID - citeulike:1016800 L3 - citeulike-article-id:1016800 TI - Relating three-dimensional structures to protein networks provides evolutionary insights. JF - Science VL - 314 IS - 5807 SP - 1938 EP - 1941 AD - Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA. SN - 1095-9203 N2 - Most studies of protein networks operate on a high level of abstraction, neglecting structural and chemical aspects of each interaction. Here, we characterize interactions by using atomic-resolution information from three-dimensional protein structures. We find that some previously recognized relationships between network topology and genomic features (e.g., hubs tending to be essential proteins) are actually more reflective of a structural quantity, the number of distinct binding interfaces. Subdividing hubs with respect to this quantity provides insight into their evolutionary rate and indicates that additional mechanisms of network growth are active in evolution (beyond effective preferential attachment through gene duplication). KW - network KW - structure AU - Kim, PM AU - Lu, LJ AU - Xia, Y AU - Gerstein, MB PY - 2006/12/22/ UR - http://dx.doi.org/10.1126/science.1136174 ER -

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