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Publications

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Design and synthesis of novel 1H-tetrazol-5-amine based potent antimicrobial agents: DNA topoisomerase IV and gyrase affinity evaluation supported by molecular docking studiesSzulczyk, D. et al.European Journal of Medicinal Chemistry 156, 631 - 640, 2018.
Connecting thermal and mechanical protein (un)folding landscapesSun, L., Noel, J.K., Sulkowska, J.I., Levine, H. & Onuchic, J.N.Biophysical Journal 107(12), 2950-61, 2014.
Stretching to understand proteins - a survey of the protein data bank.Sulkowska, J.I. & Cieplak, M.Biophys J 94, 6-13, 2008.
Dodging the crisis of folding proteins with knots.Sulkowska, J.I., Sułkowski, P. & Onuchic, J.Proceedings of the National Academy of Sciences of the United States of America 106, 3119-24, 2009.
Conservation of complex knotting and slipknotting patterns in proteins.Sulkowska, J.I., Rawdon, E.J., Millett, K.C., Onuchic, J.N. & Stasiak, A.Proceedings of the National Academy of Sciences of the United States of America 109, E1715-23, 2012.
Predicting the order in which contacts are broken during single molecule protein stretching experiments.Sulkowska, J.I., Kloczkowski, A., Sen, T.Z., Cieplak, M. & Jernigan, R.L.Proteins 71, 45-60, 2008.
Genomics-aided structure prediction.Sulkowska, J.I., Morcos, F., Weigt, M., Hwa, T. & Onuchic, J.N.Proceedings of the National Academy of Sciences of the United States of America 109, 10340-5, 2012.
Tightening of knots in proteins.Sulkowska, J.I., Sułkowski, P., Szymczak, P. & Cieplak, M.Phys Rev Lett 100, 058106, 2008.
Jamming proteins with slipknots and their free energy landscape.Sulkowska, J.I., Sułkowski, P. & Onuchic, J.N.Phys Rev Lett 103, 268103, 2009.
Energy landscape of knotted protein folding.Sulkowska, J.I., Noel, J.K. & Onuchic, J.N.Proceedings of the National Academy of Sciences of the United States of America 109, 17783-8, 2012.
Selection of optimal variants of Gō-like models of proteins through studies of stretching.Sulkowska, J.I. & Cieplak, M.Biophys J 95, 3174-91, 2008.
Untying knots in proteins.Sulkowska, J.I., Sułkowski, P., Szymczak, P. & Cieplak, M.Journal of the American Chemical Society 132, 13954-6, 2010.
Mechanical stretching of proteins—a theoretical survey of the Protein Data BankSulkowska, J.I. & Cieplak, M.Journal of Physics: Condensed Matter 19, , 2007.
Knotting pathways in proteins.Sulkowska, J.I. et al.Biochemical Society Transactions 41, 523-7, 2013.
Stabilizing effect of knots on proteins.Sulkowska, J.I., Sulkowski, P., Szymczak, P. & Cieplak, M.Proceedings of the National Academy of Sciences of the United States of America 105, 19714-9, 2008.
Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization stepSteczkiewicz, K. et al.Proceedings of the National Academy of Sciences of the United States of America 108, 9443–8, 2011.
Monte Carlo approaches to the protein folding problemSkolnick, J. & Koliński, A.Advances in Chemical Physics: Monte Carlo Methods in Chemical Physics 105, 203–242, 1999.
A unified approach to the prediction of protein structure and functionSkolnick, J. & Koliński, A.Computational Methods for Protein Folding 120, , 2002.
Computer simulations of globular protein folding and tertiary structureSkolnick, J. & Koliński, A.Annual Review of Physical Chemistry 40, 207–235, 1989.
Reduced protein models and their application to the protein folding problemSkolnick, J., Koliński, A. & Ortiz, A.R.Journal of Biomolecular Structure and Dynamics 16, 381–396, 1998.
Monte Carlo simulations of the folding of beta-barrel globular proteinsSkolnick, J., Koliński, A. & Yaris, R.Proceedings of the National Academy of Sciences of the United States of America 85, 5057–5061, 1988.
Structural genomics and its importance for gene function analysisSkolnick, J., Fetrow, J.S. & Koliński, A.Nature Biotechnology 18, 283–287, 2000.
Dynamic Monte Carlo Globular Protein Folding and StructureSkolnick, J., Koliński, A. & Sikorski, A.Chemical Design Automation News 5, 1–20, 1990.
Simulations of the folding of a globular proteinSkolnick, J. & Koliński, A.Science 250, 1121–1125, 1990.
Ab initio modelingSkolnick, J. et al.Structural Genomics and High Throughput Structural Biology 137-162, 2006.

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