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Artículo

Site-Specific Structural Constraints on Protein Sequence Evolutionary Divergence: Local Packing Density versus Solvent Exposure

Yeh, So Wei; Liu, Jen Wei; Yu, Sung Huan; Yih, Chien Hua; Hwang, Jenn Kang; Echave, JuliánIcon
Fecha de publicación: 10/2013
Editorial: Oxford University Press
Revista: Molecular Biology and Evolution
ISSN: 0737-4038
e-ISSN: 1537-1719
Idioma: Inglés
Tipo de recurso: Artículo publicado
Clasificación temática:
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Resumen

Protein sequences evolve under selection pressures imposed by functional and biophysical requirements, resulting in site-dependent rates of amino acid substitution. Relative solvent accessibility (RSA) and local packing density (LPD) have emerged as the best candidates to quantify structural constraint. Recent research assumes that RSA is the main determinant of sequence divergence. However, it is not yet clear which is the best predictor of substitution rates. To address this issue, we compared RSA and LPD with site-specific rates of evolution for a diverse data set of enzymes. In contrast with recent studies, we found that LPD measures correlate better than RSA with evolutionary rate. Moreover, the independent contribution of RSA is minor. Taking into account that LPD is related to backbone flexibility, we put forward the possibility that the rate of evolution of a site is determined by the ease with which the backbone deforms to accommodate mutations.
Palabras clave: Protein Evolution , Local Packing Density , Relative Solvent Accessibility , Evolutionary Rate , Weighted Contact Number , Contact Number , Protein Structure
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info:eu-repo/semantics/openAccess Excepto donde se diga explícitamente, este item se publica bajo la siguiente descripción: Creative Commons Attribution-NonCommercial-ShareAlike 2.5 Unported (CC BY-NC-SA 2.5)
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URI: http://hdl.handle.net/11336/32948
URL: https://academic.oup.com/mbe/article/31/1/135/1048166
DOI: http://dx.doi.org/10.1093/molbev/mst178
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Citación
Yeh, So Wei; Liu, Jen Wei; Yu, Sung Huan; Yih, Chien Hua; Hwang, Jenn Kang; et al.; Site-Specific Structural Constraints on Protein Sequence Evolutionary Divergence: Local Packing Density versus Solvent Exposure; Oxford University Press; Molecular Biology and Evolution; 31; 1; 10-2013; 135-139
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