Andrzej Kolinski Research Group

Coarse-grained protein modeling

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Modeling Software & Servers

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Biomolecules — dynamics & interactions

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Publications of this author

[206]
Multiscale approach to protein folding dynamics
Author(s): S. Kmiecik, M. Jamroz, A. Koliński, A. Koliński
Multiscale Approaches to Protein Modeling, 281-294, 2011
[205]
Preface
Author(s): A. Koliński, A. Koliński
Multiscale Approaches to Protein Modeling, 2011
[204]
Multiscale approach to protein folding dynamics
Author(s): S. Kmiecik, M. Jamroz, A. Koliński, A. Koliński
Multiscale Approaches to Protein Modeling, 281-294, 2011
[203]
Multiscale protein and peptide docking
Author(s): M. Kurcinski, M. Jamroz, A. Koliński
Multiscale Approaches to Protein Modeling, 21-34, 2011
[202]
Lattice polymers and protein models
Author(s): A. Koliński, A. Koliński
Multiscale Approaches to Protein Modeling, 1-20, 2011
[201]
Computational study of binding of epothilone A to β-tubulin
Author(s): K. Kamel, A. Koliński
Acta Biochimica Polonica, 58:255–60, 2011
[200]
CABS-NMR–De novo tool for rapid global fold determination from chemical shifts, residual dipolar couplings and sparse methyl-methyl NOEs
Author(s): D. Latek, A. Koliński
Journal of c\Computational Chemistry, 32:536–44, 2011
[199]
Multibody coarse-grained potentials for native structure recognition and quality assessment of protein models
Author(s): P. Gniewek, S.P. Leelananda, A. Koliński, R.L. Jernigan, A. Kloczkowski
Proteins, 79:1923–9, 2011
[198]
Note: A simple picture of subdiffusive polymer motion from stochastic simulations
Author(s): P. Gniewek, A. Koliński
The Journal of Chemical Physics, 134:056101, 2011
[197]
Simulation of chaperonin effect on protein folding: a shift from nucleation-condensation to framework mechanism
Author(s): S. Kmiecik, A. Koliński
Journal of the American Chemical Society, 133:10283–9, 2011
[196]
Analysis and optimization of interactions between peptides mimicking the GD2 ganglioside and the monoclonal antibody 14G2a
Author(s): I. Horwacik, M. Kurcinski, M. Bzowska, A.K. Kowalczyk, D. Czaplicki, A. Koliński, H. Rokita
International Journal of Molecular Medicine, 28:47–57, 2011
[195]
Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization step
Author(s): K. Steczkiewicz, M.T. Zimmermann, M. Kurcinski, B.A. Lewis, D. Dobbs, A. Kloczkowski, R.L. Jernigan, A. Koliński, K. Ginalski
Proceedings of the National Academy of Sciences of the United States of America, 108:9443–8, 2011
[194]
Protein secondary structure prediction using knowledge-based potentials
Author(s): S. Saraswathi, R.L. Jernigan, A. Kloczkowski, A. Koliński
International Conference on Fuzzy Computation and 2nd International Conference on Neural Computation, 370-375, 2010
[193]
Modeling of loops in proteins: a multi-method approach
Author(s): M. Jamroz, A. Koliński
BMC Structural Biology, 10:5, 2010
[192]
Coarse-grained Monte Carlo simulations of mucus: structure, dynamics, and thermodynamics
Author(s): P. Gniewek, A. Koliński
Biophysical Journal, 99:3507–16, 2010
[191]
Theoretical study of molecular mechanism of binding TRAP220 coactivator to Retinoid X Receptor alpha, activated by 9-cis retinoic acid
Author(s): M. Kurcinski, A. Koliński
The Journal of Steroid Biochemistry and Molecular Biology, 121:124–9, 2010
[190]
TRACER. A new approach to comparative modeling that combines threading with free-space conformational sampling
Author(s): S. Trojanowski, A. Rutkowska, A. Koliński
Acta Biochimica Polonica, 57:125–33, 2010
[189]
Distance matrix-based approach to protein structure prediction
Author(s): A. Kloczkowski, R.L. Jernigan, Z. Wu, G. Song, L. Yang, A. Koliński, P. Pokarowski
Journal of Structural and Functional Genomics, 10:67–81, 2009
[188]
Wieloskalowe modelowanie białek (Multiscale protein modeling)
Author(s): D. Gront, D. Latek, M. Kurcinski, A. Koliński, H. Koroniak, J. Barciszewski
Na pograniczu chemii i biologii (At the treshold of chemistry and biology), 17:239-256, 2008
[187]
Template-free predictions of three-dimensional protein structures: From first principles to knowledge-based potentials
Author(s): D. Gront, D. Latek, M. Kurcinski, A. Koliński, J.M. Bujnicki
Prediction of Protein Structures, Functions, and Interactions, 117-142, 2008
[186]
Utility library for structural bioinformatics
Author(s): D. Gront, A. Koliński
Bioinformatics (Oxford, England), 24:584–5, 2008
[185]
Contact prediction in protein modeling: scoring, folding and refinement of coarse-grained models
Author(s): D. Latek, A. Koliński
BMC Structural Biology, 8:36, 2008
[184]
Predicting the complex structure and functional motions of the outer membrane transporter and signal transducer FecA
Author(s): T.Z. Sen, M. Kloster, R.L. Jernigan, A. Koliński, J.M. Bujnicki, A. Kloczkowski
Biophysical journal, 94:2482–91, 2008
[183]
Fast and accurate methods for predicting short-range constraints in protein models
Author(s): D. Gront, A. Koliński
Journal of Computer-Aided Molecular Design, 22:783–8, 2008
[182]
Designing an Automatic Pipeline for Protein Structure Prediction Designing an Automatic Pipeline for Protein Structure Prediction
Author(s): S. Kmiecik, M. Jamroz, A. Zwolinska, P. Gniewek, A. Koliński, U.H.E. Hansmann, J.H. Meinke, S. Mohanty, W. Nadler, O. Zimmermann
From Computational Biophysics to Systems Biology (CBSB08), 40:105–108, 2008

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