Andrzej Kolinski Research Group

Coarse-grained protein modeling

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Biomolecules — dynamics & interactions

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Publications of this author

[106]
Correlation between knowledge-based and detailed atomic potentials: application to the unfolding of the GCN4 leucine zipper
Author(s): D. Mohanty, B.N. Dominy, A. Koliński, C.L. Brooks, J. Skolnick
Proteins, 35:447–452, 1999
[105]
The role of computational biology in the genomics revolution
Author(s): J. Skolnick, J.S. Fetrow, A.R. Ortiz, A. Koliński
Impact of Advances in Computing and Communications Technologies on Chemical Sciences and Technology, Proceedings of the National Research Council, pp:44–61, 1999
[104]
Monte Carlo approaches to the protein folding problem
Author(s): J. Skolnick, A. Koliński
Advances in Chemical Physics: Monte Carlo Methods in Chemical Physics, 105:203–242, 1999
[103]
De novo simulations of the folding thermodynamics of the GCN4 leucine zipper
Author(s): D. Mohanty, A. Koliński, J. Skolnick
Biophysical Journal, 77:54–69, 1999
[102]
Computer simulations of de novo designed helical proteins
Author(s): A. Sikorski, A. Koliński, J. Skolnick
Biophysical Journal, 75:92–105, 1998
[101]
Combined multiple sequence reduced protein model approach to predict the tertiary structure of small proteins
Author(s): A.R. Ortiz, A. Koliński, J. Skolnick
Proceedings of the Pacific Symposium on Biocomputing ’98, pp:377–388, 1998
[100]
Nativelike topology assembly of small proteins using predicted restraints in Monte Carlo folding simulations
Author(s): A.R. Ortiz, A. Koliński, J. Skolnick
Proceedings of the National Academy of Sciences of the United States of America, 95:1020–1025, 1998
[99]
Fold assembly of small proteins using monte carlo simulations driven by restraints derived from multiple sequence alignments
Author(s): A.R. Ortiz, A. Koliński, J. Skolnick
Journal of Molecular Biology, 277:419–448, 1998
[98]
Tertiary structure prediction of the KIX domain of CBP using Monte Carlo simulations driven by restraints derived from multiple sequence alignments
Author(s): A.R. Ortiz, A. Koliński, J. Skolnick
Proteins, 30:287–294, 1998
[97]
Reduced protein models and their application to the protein folding problem
Author(s): J. Skolnick, A. Koliński, A.R. Ortiz
Journal of Biomolecular Structure and Dynamics, 16:381–396, 1998
[96]
Monte Carlo studies of the thermodynamics and kinetics of reduced protein models: Application to small helical, β, and α / β proteins
Author(s): A. Koliński, W. Galazka, J. Skolnick
Journal of Chemical Physics, 108:2608–2617, 1998
[95]
An efficient Monte Carlo model of protein chains. Modeling the short-range correlations between side group centers of mass
Author(s): A. Koliński, L. Jaroszewski, P. Rotkiewicz, J. Skolnick
The Journal of Physycal Chemistry B, 102:4628–4637, 1998
[94]
Application of a high coordination lattice model in protein structure prediction
Author(s): A. Koliński, P. Rotkiewicz, J. Skolnick
Proceedings of HRLC Workshop, pp:100–130, 1998
[93]
Assembly of protein structure from sparse experimental data: an efficient Monte Carlo model
Author(s): A. Koliński, J. Skolnick
Proteins, 32:475–494, 1998
[92]
Collapse transitions in protein-like lattice polymers: The effect of sequence patterns
Author(s): A. Koliński, P. Madziar
Biopolymers, 42:537–548, 1997
[91]
Determinants of secondary structure of polypeptide chains: Interplay between short range and burial interactions
Author(s): A. Koliński, J. Skolnick
Journal of Chemical Physics, 107:953–964, 1997
[90]
Method for low resolution prediction of small protein tertiary structure
Author(s): A.R. Ortiz, W.P. Hu, A. Koliński, J. Skolnick
Proceeding of II-nd Pacific Symposium on Biocomputing, 316–327, 1997
[89]
High coordination lattice models of protein structure, dynamics and thermodynamics
Author(s): A. Koliński, J. Skolnick
Acta Biochim Polonica, 44:389–422, 1997
[88]
A method for the prediction of surface "U"-turns and transglobular connections in small proteins
Author(s): A. Koliński, J. Skolnick, A. Godzik, W.P. Hu
Proteins, 27:290–308, 1997
[87]
Algorithm for rapid reconstruction of protein backbone from alpha carbon coordinates
Author(s): M. Milik, A. Koliński, J. Skolnick
Journal of Computational Chemistry, 18:80–85, 1997
[86]
Improved method for prediction of protein backbone U-turn positions and major secondary structural elements between U-turns
Author(s): W.P. Hu, A. Koliński, J. Skolnick
Proteins, 29:443–460, 1997
[85]
MONSSTER: a method for folding globular proteins with a small number of distance restraints
Author(s): J. Skolnick, A. Koliński, A.R. Ortiz
Journal of Molecular Biology, 265:217–241, 1997
[84]
Monte Carlo lattice dynamics and the prediction of protein folds
Author(s): J. Skolnick, A. Koliński, W.F. van Gunsteren, P.K. Weiner, A.J. Wilkinson
Computer Simulations of Biomolecular Systems. Theoretical and Experimental Applications, pp:395–429, 1997
[83]
Derivation and testing of pair potentials for protein folding. When is the quasichemical approximation correct?
Author(s): J. Skolnick, L. Jaroszewski, A. Koliński, A. Godzik
Protein Science, 6:676–688, 1997
[82]
Lattice models of protein folding. Dynamics and thermodynamics
Author(s): A. Koliński, J. Skolnick
Lattice models of protein folding. Dynamics and thermodynamics, Austin, TX, Chapman & Hall., 1996

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