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Derivation and testing of pair potentials for protein folding. When is the quasichemical approximation correct?: Pair potentials for protein folding by Jeffrey Skolnick; Adam Godzik; Lukasz Jaroszewski; 12Andrzej Kolinski is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.
What is Derivation and testing of pair potentials for protein folding. When is the quasichemical approximation correct?: Pair potentials for protein folding about?
Many existing derivations of knowledge-based statistical pair potentials invoke the quasichemical approximation to estimate the expected side-chain contact frequency if there were no amino acid pair-specific interactions. At first glance, the quasichemical approximation that treats the residues in a protein as being disconnected and expresses the side-chain contact probability as being proportional to the product of the mole fractions of the pair of residues would appear to be rather severe. To investigate the validity of this approximation, we introduce two new reference states in which no specific pair interactions between amino acids are allowed, but in which the connectivity of the protein chain is retained. The first estimates the expected number of side-chain contracts by treating the protein as a Gaussian random coil polymer. The second, more realistic reference state includes the effects of chain connectivity, secondary structure, and chain compactness by estimating the expected side-chain contrast probability by placing the sequence of interest in each member of a library of structures of comparable compactness to the native conformation. The side-chain contact maps are no
Who reads Derivation and testing of pair potentials for protein folding. When is the quasichemical approximation correct?: Pair potentials for protein folding?
It is typically read by researchers, students, and practitioners in Biochemistry, Genetics and Molecular Biology.
- Author
- Jeffrey Skolnick; Adam Godzik; Lukasz Jaroszewski; 12Andrzej Kolinski
- Publisher
- Cold Spring Harbor Laboratory Press; Wiley (John Wiley & Sons); Wiley-Blackwell; Wiley (ISSN 0961-8368)
- Published
- 1997
- Language
- EN
- Field
- Biochemistry, Genetics and Molecular Biology (Life Sciences)