Deriving amino acid contact potentials from their frequencies of occurrence in proteins: a lattice model study
暂无分享,去创建一个
R. Broglia | G. Tiana | D. Provasi | R. A. Broglia | M. Colombo | G. Tiana | M. Colombo | D. Provasi
[1] A. Godzik,et al. Are proteins ideal mixtures of amino acids? Analysis of energy parameter sets , 1995, Protein science : a publication of the Protein Society.
[2] P. Wolynes,et al. Intermediates and barrier crossing in a random energy model , 1989 .
[3] E. Shakhnovich,et al. Topological determinants of protein folding , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[4] C. J. Adkins. Thermodynamics and statistical mechanics , 1972, Nature.
[5] A. Godzik,et al. A general method for the prediction of the three dimensional structure and folding pathway of globular proteins: Application to designed helical proteins , 1993 .
[6] E. Shakhnovich,et al. Proteins with selected sequences fold into unique native conformation. , 1994, Physical review letters.
[7] R. Broglia,et al. Hierarchy of events in the folding of model proteins , 2001 .
[8] E. Shakhnovich,et al. A new approach to the design of stable proteins. , 1993, Protein engineering.
[9] C. Tanford. Macromolecules , 1994, Nature.
[10] J. Skolnick,et al. Monte carlo simulations of protein folding. I. Lattice model and interaction scheme , 1994, Proteins.
[11] K. Dill,et al. Statistical potentials extracted from protein structures: how accurate are they? , 1996, Journal of molecular biology.
[12] R. Jernigan,et al. Residue-residue potentials with a favorable contact pair term and an unfavorable high packing density term, for simulation and threading. , 1996, Journal of molecular biology.
[13] Cecilia Clementi,et al. Determination of interaction potentials of amino acids from native protein structures: Tests on simple lattice models , 1999 .
[14] A. Finkelstein,et al. Why do protein architectures have boltzmann‐like statistics? , 1995, Proteins.
[15] L A Mirny,et al. How to derive a protein folding potential? A new approach to an old problem. , 1996, Journal of molecular biology.
[16] F. Young. Biochemistry , 1955, The Indian Medical Gazette.
[17] R. Jernigan,et al. Estimation of effective interresidue contact energies from protein crystal structures: quasi-chemical approximation , 1985 .
[18] E. Shakhnovich,et al. Analysis of knowledge‐based protein‐ligand potentials using a self‐consistent method , 2008, Protein science : a publication of the Protein Society.
[19] J Skolnick,et al. How do potentials derived from structural databases relate to “true” potentials? , 1998, Protein science : a publication of the Protein Society.
[20] D. Thirumalai,et al. Pair potentials for protein folding: Choice of reference states and sensitivity of predicted native states to variations in the interaction schemes , 2008, Protein science : a publication of the Protein Society.
[21] E I Shakhnovich,et al. Specific nucleus as the transition state for protein folding: evidence from the lattice model. , 1994, Biochemistry.
[22] M Vendruscolo,et al. Can a pairwise contact potential stabilize native protein folds against decoys obtained by threading? , 2000, Proteins.
[23] C. Anfinsen. Principles that govern the folding of protein chains. , 1973, Science.
[24] M. Sippl. Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins. , 1990, Journal of molecular biology.
[25] B. Rost,et al. Protein structures sustain evolutionary drift. , 1997, Folding & design.
[26] A. Ben-Naim. STATISTICAL POTENTIALS EXTRACTED FROM PROTEIN STRUCTURES : ARE THESE MEANINGFUL POTENTIALS? , 1997 .
[27] B. Derrida. Random-energy model: An exactly solvable model of disordered systems , 1981 .