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Dmitry Kondrashov
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Year
Ensemble refinement of protein crystal structures: validation and application
EJ Levin, DA Kondrashov, GE Wesenberg, GN Phillips Jr
Structure 15 (9), 1040-1052, 2007
1872007
Optimization and evaluation of a coarse-grained model of protein motion using x-ray crystal data
DA Kondrashov, Q Cui, GN Phillips Jr
Biophysical journal 91 (8), 2760-2767, 2006
1222006
Protein structural variation in computational models and crystallographic data
DA Kondrashov, AW Van Wynsberghe, RM Bannen, Q Cui, GN Phillips Jr
Structure 15 (2), 169-177, 2007
1192007
Topological features of rugged fitness landscapes in sequence space
DA Kondrashov, FA Kondrashov
Trends in Genetics 31 (1), 24-33, 2015
802015
Protein Functional Cycle Viewed at Atomic Resolution:  Conformational Change and Mobility in Nitrophorin 4 as a Function of pH and NO Binding,
DA Kondrashov, SA Roberts, A Weichsel, WR Montfort
Biochemistry 43 (43), 13637-13647, 2004
732004
Structure and Dynamics of UDP–Glucose Pyrophosphorylase from Arabidopsis thaliana with Bound UDP–Glucose and UTP
JG McCoy, E Bitto, CA Bingman, GE Wesenberg, RM Bannen, ...
Journal of molecular biology 366 (3), 830-841, 2007
542007
Sampling of the native conformational ensemble of myoglobin via structures in different crystalline environments
DA Kondrashov, W Zhang, R Aranda IV, B Stec, GN Phillips Jr
Proteins: Structure, Function, and Bioinformatics 70 (2), 353-362, 2008
472008
Structure of human J-type co-chaperone HscB reveals a tetracysteine metal-binding domain
E Bitto, CA Bingman, L Bittova, DA Kondrashov, RM Bannen, BG Fox, ...
Journal of Biological Chemistry 283 (44), 30184-30192, 2008
402008
Creating protein models from electron-density maps using particle-filtering methods
F DiMaio, DA Kondrashov, E Bitto, A Soni, CA Bingman, GN Phillips Jr, ...
Bioinformatics 23 (21), 2851-2858, 2007
372007
Nonequilibrium dynamics simulations of nitric oxide release: comparative study of nitrophorin and myoglobin
DA Kondrashov, WR Montfort
The Journal of Physical Chemistry B 111 (31), 9244-9252, 2007
252007
Structure and dynamics of γ‐SNAP: Insight into flexibility of proteins from the SNAP family
E Bitto, CA Bingman, DA Kondrashov, JG McCoy, RM Bannen, ...
Proteins: Structure, Function, and Bioinformatics 70 (1), 93-104, 2008
202008
Quantifying Life
DA Kondrashov
Quantifying Life, 2016
32016
Using normal mode analysis in teaching mathematical modeling to biology students
DA Kondrashov
Mathematical Modelling of Natural Phenomena 6 (6), 278-294, 2011
22011
Molecular mastication mechanics
DA Kondrashov, GN Phillips Jr
Structure 13 (6), 836-837, 2005
22005
Geometric Theory of Crystal Growth
D KONDRASHOV
11998
Teaching Quantitative Modeling Remotely
D Kondrashov
2020
Teaching Data Analysis Using Students' Own Data
D Kondrashov, S Allesina
2019
Discrete stochastic modeling for first-year biology students
D Kondrashov
2017
Probability distributions of Markov chains
DA Kondrashov
Quantifying Life, 233-252, 2016
2016
Quantifying Life: A Computational Approach to Teaching Mathematics to Biology Students
D Kondrashov
2016
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Articles 1–20