Publications
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Author Title [ Type] Year Filters: First Letter Of Title is P [Clear All Filters]
Pages
Predicting real-valued protein residue fluctuation using FlexPredMethods in Molecular Biology 1484, 175-186, 2017.
PrefaceMultiscale Approaches to Protein Modeling , 2011.
Protein Dynamics Simulations Using Coarse-Grained ModelsComputational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes: From Bioinformatics to Molecular Quantum Mechanics 61–87, 2019.
Protein Structure Prediction Using Coarse-Grained ModelsComputational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes: From Bioinformatics to Molecular Quantum Mechanics 27–59, 2019.
Protocols for All-Atom Reconstruction and High-Resolution Refinement of Protein–Peptide Complex StructuresProtein Structure Prediction 273–287, 2020.
Protocols for efficient simulations of long time protein dynamics using coarse-grained CABS modelProtein structure prediction (3rd Edition), Methods in Molecular Biology, Daisuke Kihara, Ed. 1137, 235-250, 2014.
Protocols for Fast Simulations of Protein Structure Flexibility Using CABS-Flex and SURPASSProtein Structure Prediction 337–353, 2020.
Prediction of Experimental Phi Values in Protein Folding by Simulation with Knowledge-based Potentials: B Domain of Protein AFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 79–82, 2012.
Prediction of the quaternary structure of coiled coils: GCN4 leucine zipper and its mutants.Proceeding of I-st Pacific Symposium on Biocomputing 653–662, 1996.
Protein secondary structure prediction using knowledge-based potentialsInternational Conference on Fuzzy Computation and 2nd International Conference on Neural Computation 370-375, 2010.
Protein Structure Prediction Using CABS – A Consensus ApproachFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 29–32, 2012.
Phenomenological Theory of Polymer Melt DynamicsInternational Journal of Modern Physics B 3, 33-64, 1989.
Phenomenological theory of the dynamics of polymer melts. I. Analytic treatment of self-diffusionThe Journal of Chemical Physics 3, 33–64, 1988.
Phosphorylation of the N-terminal domain of ribosomal P-stalk protein uL10 governs its association with the ribosomeFEBS Letters 594, 3002-3019, 2020.
Predicting the complex structure and functional motions of the outer membrane transporter and signal transducer FecABiophysical journal 94, 2482–91, 2008.
Prediction of protein secondary structure by an enhanced neural networkActa Biochimica Polonica 38, , 1991.
Prediction of protein secondary structure by neural networks: encoding short and long range patterns of amino acid packingActa Biochimica Polonica 39, 369–392, 1992.
Prediction of quaternary structure of coiled coils. Application to mutants of the GCN4 leucine zipperJournal of Molecular Biology 251, 448–67, 1995.
Prediction of the Folding Pathways and Structure of the GCN4 Leucine ZipperJournal of Molecular Biology 237, 361 - 367, 1994.
Prediction of the optimal set of contacts to fold the smallest knotted protein.J Phys Condens Matter 27, 354109, 2015.
Preformed template fluctuations promote fibril formation: Insights from lattice and all-atom modelsThe Journal of Chemical Physics 142, 145104 , 2015.
Protein Folding: Flexible Lattice ModelsProgress of Theoretical Physics Supplement 138, 292–300, 2000.
The protein folding problem: a biophysical enigmaCurrent Pharmaceutical Biotechnology 3, 329–347, 2002.