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A physical basis for protein secondary structure.


ABSTRACT: A physical theory of protein secondary structure is proposed and tested by performing exceedingly simple Monte Carlo simulations. In essence, secondary structure propensities are predominantly a consequence of two competing local effects, one favoring hydrogen bond formation in helices and turns, the other opposing the attendant reduction in sidechain conformational entropy on helix and turn formation. These sequence specific biases are densely dispersed throughout the unfolded polypeptide chain, where they serve to preorganize the folding process and largely, but imperfectly, anticipate the native secondary structure.

SUBMITTER: Srinivasan R 

PROVIDER: S-EPMC24424 | biostudies-literature | 1999 Dec

REPOSITORIES: biostudies-literature

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A physical basis for protein secondary structure.

Srinivasan R R   Rose G D GD  

Proceedings of the National Academy of Sciences of the United States of America 19991201 25


A physical theory of protein secondary structure is proposed and tested by performing exceedingly simple Monte Carlo simulations. In essence, secondary structure propensities are predominantly a consequence of two competing local effects, one favoring hydrogen bond formation in helices and turns, the other opposing the attendant reduction in sidechain conformational entropy on helix and turn formation. These sequence specific biases are densely dispersed throughout the unfolded polypeptide chain  ...[more]

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