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

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Consistent View of Protein Fluctuations from All-Atom Molecular Dynamics and Coarse-Grained Dynamics with Knowledge-Based Force-FieldJamroz, M., Orozco, M., Koliński, A. & Kmiecik, S.Journal of Chemical Theory and Computation 9, 119 - 125, 2013.
Ensemble-based evaluation for protein structure modelsJamroz, M., Koliński, A. & Kihara, D.Bioinformatics 32, i314–i321, 2016.
CABS-flex: server for fast simulation of protein structure fluctuationsJamroz, M., Koliński, A. & Kmiecik, S.Nucleic Acids Research 41, W427-W431, 2013.
KnotProt: a database of proteins with knots and slipknotsJamroz, M. et al.Nucleic Acids Research 43, D306-D314, 2015.
ClusCo: clustering and comparison of protein modelsJamroz, M. & Koliński, A.BMC Bioinformatics 14, 62, 2013.
CABS-flex predictions of protein flexibility compared with NMR ensemblesJamroz, M., Koliński, A. & Kmiecik, S.Bioinformatics 30, 2150-2154, 2014.
Structural features that predict real-value fluctuations of globular proteinsJamroz, M., Koliński, A. & Kihara, D.Proteins 80, 1425–35, 2012.
Protocols for efficient simulations of long time protein dynamics using coarse-grained CABS modelJamroz, M., Koliński, A. & Kmiecik, S.Protein structure prediction (3rd Edition), Methods in Molecular Biology, Daisuke Kihara, Ed. 1137, 235-250, 2014.
Modeling of loops in proteins: a multi-method approachJamroz, M. & Koliński, A.BMC Structural Biology 10, 5, 2010.