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Restricted sidechain plasticity in the structures of native proteins and complexes.

ABSTRACT: Protein-design methodology can now generate models of protein structures and interfaces with computed energies in the range of those of naturally occurring structures. Comparison of the properties of native structures and complexes to isoenergetic design models can provide insight into the properties of the former that reflect selection pressure for factors beyond the energy of the native state. We report here that sidechains in native structures and interfaces are significantly more constrained than designed interfaces and structures with equal computed binding energy or stability, which may reflect selection against potentially deleterious non-native interactions.

SUBMITTER: Fleishman SJ

PROVIDER: S-EPMC3081553 | biostudies-literature | 2011 Apr

REPOSITORIES: biostudies-literature

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Restricted sidechain plasticity in the structures of native proteins and complexes.

Fleishman Sarel J SJ Khare Sagar D SD Koga Nobuyasu N Baker David D

Protein science : a publication of the Protein Society 20110401 4

Protein-design methodology can now generate models of protein structures and interfaces with computed energies in the range of those of naturally occurring structures. Comparison of the properties of native structures and complexes to isoenergetic design models can provide insight into the properties of the former that reflect selection pressure for factors beyond the energy of the native state. We report here that sidechains in native structures and interfaces are significantly more constrained ...[more]

PMID: 21432939

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