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Authors whose works are in public domain in at least one jurisdiction

List of works by Eugene I. Shakhnovich

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Pseudodihedrals: simplified protein backbone representation with knowledge-based energy

scientific article published on September 1994
A structure-based method for derivation of all-atom potentials for protein folding

scientific article
Functional fingerprints of folds: evidence for correlated structure-function evolution

scientific article published on February 2003
Universality and diversity of folding mechanics for three-helix bundle proteins

scholarly article
High-resolution protein folding with a transferable potential

scholarly article
Predicting specificity-determining residues in two large eukaryotic transcription factor families

scientific article
Nucleation and the transition state of the SH3 domain

scientific article
Structural mining: self-consistent design on flexible protein-peptide docking and transferable binding affinity potential

scientific article published in July 2004
Thermodynamics and folding kinetics analysis of the SH3 domain form discrete molecular dynamics

scientific article
Modeling protein folding: the beauty and power of simplicity

scientific article
Imprint of evolution on protein structures

scientific article
Combinatorial computational method gives new picomolar ligands for a known enzyme

scientific article
Contribution of selection for protein folding stability in shaping the patterns of polymorphisms in coding regions

scientific article published on 11 October 2013
Simulation, experiment, and evolution: understanding nucleation in protein S6 folding

scholarly article
Domains in folding of model proteins

scientific article published on June 1995
The influence of selection for protein stability on dN/dS estimations

scientific article
Positively selected sites in cetacean myoglobins contribute to protein stability

scientific article
Different circular permutations produced different folding nuclei in proteins: a computational study

scientific article
Influenza A H1N1 pandemic strain evolution--divergence and the potential for antigenic drift variants

scientific article
Optimality of mutation and selection in germinal centers

scientific article
Non‐native interactions play an effective role in protein folding dynamics

scientific article published on November 1, 2010
A simulated intermediate state for folding and aggregation provides insights into ΔN6 β2-microglobulin amyloidogenic behavior

scientific article
Protein structure prediction by threading. why it works and why it does not 1 1Edited by F. Cohen

scientific article published on October 23, 1998
Prokaryotic phylogenies inferred from protein structural domains

scientific article published on March 2005
Thermal adaptation of viruses and bacteria

scientific article
How the first biopolymers could have evolved

scientific article
Simulations of chaperone-assisted folding

scientific article published in January 1996
A protein engineering analysis of the transition state for protein folding: simulation in the lattice model

scientific article published on January 1, 1998
Benchmarking Inverse Statistical Approaches for Protein Structure and Design with Exactly Solvable Models

scientific article
Highly abundant proteins favor more stable 3D structures in yeast

scientific article published in February 2013
Comparison of two optimization methods to derive energy parameters for protein folding: perceptron and Z score

scientific article published in November 2000
Excluded volume in protein side-chain packing

scientific article published in August 2001
The mechanical unfolding of ubiquitin through all-atom Monte Carlo simulation with a Go-type potential

scientific article
Evidence of evolutionary selection for cotranslational folding

scientific article published on October 10, 2017
SDR: a database of predicted specificity-determining residues in proteins

scientific article published on 16 October 2008
Protein Evolution within a Structural Space

scientific article published on November 1, 2003
PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics

scientific article
Determining functional specificity from protein sequences

scientific article published on 29 March 2005
Bridging the physical scales in evolutionary biology: from protein sequence space to fitness of organisms and populations

scientific article published on 31 October 2016
Structural and energetic determinants of co-translational folding

scientific article published in June 2013
Optimization of lag phase shapes the evolution of a bacterial enzyme

scientific article
Influence of point mutations on protein structure: probability of a neutral mutation

scientific article
De novodesign: balancing novelty and confined chemical space

scientific article published on June 30, 2010
From knowledge-based potentials to combinatorial lead design in silico

scientific article
Hiking in the energy landscape in sequence space: a bumpy road to good folders

scientific article published in May 2000
A Universal Trend among Proteomes Indicates an Oily Last Common Ancestor

scientific article published on December 27, 2012
Emergence of species in evolutionary "simulated annealing".

scholarly article
Folding Kinetics of Villin 14T, a Protein Domain with a Central β-Sheet and Two Hydrophobic Cores

scientific article published on October 13, 1998
Transient protein-protein interactions perturb E. coli metabolome and cause gene dosage toxicity.

scientific article published on 10 December 2016
Isolation and Analysis of Rare Norovirus Recombinants from Coinfected Mice Using Drop-Based Microfluidics

scientific article published on 13 May 2015

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