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Dominik Gront
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Coarse-grained protein models and their applications
S Kmiecik, D Gront, M Kolinski, L Wieteska, AE Dawid, A Kolinski
Chemical Reviews 116 (14), 7898-7936, 2016
9912016
Macromolecular modeling and design in Rosetta: recent methods and frameworks
JK Leman, BD Weitzner, SM Lewis, J Adolf-Bryfogle, N Alam, RF Alford, ...
Nature methods 17 (7), 665-680, 2020
5502020
Generalized fragment picking in Rosetta: design, protocols and applications
D Gront, DW Kulp, RM Vernon, CEM Strauss, D Baker
PloS one 6 (8), e23294, 2011
2142011
Backbone building from quadrilaterals: a fast and accurate algorithm for protein backbone reconstruction from alpha carbon coordinates
D Gront, S Kmiecik, A Kolinski
Journal of computational chemistry 28 (9), 1593-1597, 2007
1372007
Comparison of three Monte Carlo conformational search strategies for a proteinlike homopolymer model: Folding thermodynamics and identification of low-energy structures
D Gront, A Kolinski, J Skolnick
The Journal of Chemical Physics 113 (12), 5065-5071, 2000
942000
Utility library for structural bioinformatics
D Gront, A Kolinski
Bioinformatics 24 (4), 584-585, 2008
602008
Towards the high-resolution protein structure prediction. Fast refinement of reduced models with all-atom force field
S Kmiecik, D Gront, A Kolinski
BMC structural biology 7 (1), 1-11, 2007
602007
BioShell—a package of tools for structural biology computations
D Gront, A Kolinski
Bioinformatics 22 (5), 621-622, 2006
572006
Efficient scheme for optimization of parallel tempering Monte Carlo method
D Gront, A Kolinski
Journal of Physics: Condensed Matter 19 (3), 036225, 2007
472007
HCPM—program for hierarchical clustering of protein models
D Gront, A Kolinski
Bioinformatics 21 (14), 3179-3180, 2005
422005
A new combination of replica exchange Monte Carlo and histogram analysis for protein folding and thermodynamics
D Gront, A Kolinski, J Skolnick
The Journal of Chemical Physics 115 (3), 1569-1574, 2001
422001
Optimization of protein models
D Gront, S Kmiecik, M Blaszczyk, D Ekonomiuk, A Koliński
Wiley Interdisciplinary Reviews: Computational Molecular Science 2 (3), 479-493, 2012
402012
Type II restriction endonuclease R. Eco29kI is a member of the GIY-YIG nuclease superfamily
EM Ibryashkina, MV Zakharova, VB Baskunov, ES Bogdanova, ...
BMC structural biology 7, 1-10, 2007
392007
From coarse-grained to atomic-level characterization of protein dynamics: transition state for the folding of B domain of protein A
S Kmiecik, D Gront, M Kouza, A Kolinski
The Journal of Physical Chemistry B 116 (23), 7026-7032, 2012
332012
Better together: Elements of successful scientific software development in a distributed collaborative community
J Koehler Leman, BD Weitzner, PD Renfrew, SM Lewis, R Moretti, ...
PLoS computational biology 16 (5), e1007507, 2020
312020
Denatured proteins and early folding intermediates simulated in a reduced conformational space
S Kmiecik, M Kurcinski, A Rutkowska, D Gront, A Kolinski
Acta Biochimica Polonica 53 (1), 131-144, 2005
312005
Biofunctionalisation of p-doped silicon with cytochrome c 553 minimises charge recombination and enhances photovoltaic performance of the all-solid-state photosystem I-based …
JDJ Olmos, P Becquet, D Gront, J Sar, A Dąbrowski, G Gawlik, ...
RSC Advances 7 (75), 47854-47866, 2017
302017
Combining coarse-grained protein models with replica-exchange all-atom molecular dynamics
J Wabik, S Kmiecik, D Gront, M Kouza, A Koliński
International journal of molecular sciences 14 (5), 9893-9905, 2013
292013
A simple lattice model that exhibits a protein‐like cooperative all‐or‐none folding transition
A Kolinski, D Gront, P Pokarowski, J Skolnick
Biopolymers: Original Research on Biomolecules 69 (3), 399-405, 2003
282003
Exploring protein energy landscapes with hierarchical clustering
D Gront, UHE Hansmann, A Kolinski
International journal of quantum chemistry 105 (6), 826-830, 2005
232005
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Articles 1–20