Physics and Evolution of Thermophilic Adaptation von Berezovsky, Igor N., Shakhnovich, Eugene I., Fersht, Alan R.

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Topological Determinants of Protein Folding von Dokholyan, Nikolay V., Li, Lewyn, Ding, Feng, Shakhnovich, Eugene I.

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The Ensemble Folding Kinetics of Protein G from an All-Atom Monte Carlo Simulation von Shimada, Jun, Shakhnovich, Eugene I.

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Expanding Protein Universe and Its Origin from the Biological Big Bang von Dokholyan, Nikolay V., Shakhnovich, Boris, Shakhnovich, Eugene I.

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Universally conserved positions in protein folds: reading evolutionary signals about stability, folding kinetics and function von Mirny, Leonid A., Shakhnovich, Eugene I.

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Theoretical studies of protein-folding thermodynamics and kinetics von Shakhnovich, Eugene I

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Proteins with selected sequences fold into unique native conformation von Shakhnovich, EI

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SMall Molecule Growth 2001 (SMoG2001):  An Improved Knowledge-Based Scoring Function for Protein−Ligand Interactions von Ishchenko, Alexey V, Shakhnovich, Eugene I

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A Simple Physical Model for Scaling in Protein-Protein Interaction Networks von Deeds, Eric J., Ashenberg, Orr, Shakhnovich, Eugene I.

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Natural Selection of More Designable Folds: A Mechanism for Thermophilic Adaptation von England, Jeremy L., Shakhnovich, Boris E., Shakhnovich, Eugene I.

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Understanding hierarchical protein evolution from first principles von Dokholyan, N V, Shakhnovich, E I

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Structural determinant of protein designability von England, Jeremy L, Shakhnovich, Eugene I

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Constructing, Verifying, and Dissecting the Folding Transition State of Chymotrypsin Inhibitor 2 with All-Atom Simulations von Li, Lewyn, Shakhnovich, Eugene I.

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Molecular Dynamics Simulation of the SH3 Domain Aggregation Suggests a Generic Amyloidogenesis Mechanism von Ding, Feng, Dokholyan, Nikolay V., Buldyrev, Sergey V., Stanley, H.Eugene, Shakhnovich, Eugene I.

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Entropic stabilization of proteins and its proteomic consequences von Berezovsky, Igor N, Chen, William W, Choi, Paul J, Shakhnovich, Eugene I

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Imprint of Evolution on Protein Structures von Tiana, Guido, Shakhnovich, Boris E., Dokholyan, Nikolay V., Shakhnovich, Eugene I., Wolynes, Peter G.

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Kinetics, thermodynamics and evolution of non-native interactions in a protein folding nucleus von Li, Lewyn, Mirny, Leonid A., Shakhnovich, Eugene I.

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The folding thermodynamics and kinetics of crambin using an all-atom monte carlo simulation von Shimada, Jun, Kussell, Edo L., Shakhnovich, Eugene I.

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Direct Molecular Dynamics Observation of Protein Folding Transition State Ensemble von Ding, Feng, Dokholyan, Nikolay V., Buldyrev, Sergey V., Stanley, H. Eugene, Shakhnovich, Eugene I.

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How to Derive a Protein Folding Potential? A New Approach to an Old Problem von Mirny, Leonid A., Shakhnovich, Eugene I.

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