Sebastian Kmiecik

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Andrzej KolinskiProfessor, University of WarsawVerified email at chem.uw.edu.pl
Mateusz KurcinskiUniwersytet WarszawskiVerified email at chem.uw.edu.pl
Michal KolinskiBioinformatics Laboratory, Mossakowski Medical Research Institute Polish Academy of SciencesVerified email at imdik.pan.pl
Aleksandra E. Badaczewska-DawidResearch Scientist IV, Genome Informatics Facility, Iowa State UniversityVerified email at iastate.edu
Dominik GrontUniversity of Warsaw, Faculty of ChemistryVerified email at chem.uw.edu.pl
Michal JamrozUniversity of WarsawVerified email at chem.uw.edu.pl
Maciej BlaszczykUniversity of WarsawVerified email at chem.uw.edu.pl
Maciej Paweł CiemnyUniversity of WarsawVerified email at fuw.edu.pl
Salvador VenturaInstitute of Biotechnology and Biomedicine (IBB), Universitat Autonoma de BarcelonaVerified email at uab.es
Maksim KouzaFaculty of Chemistry, University of WarsawVerified email at chem.uw.edu.pl
Lukasz WieteskaResearch Associate, The Francis Crick InstituteVerified email at pitt.edu
Jordi PujolsUniversitat Autònoma de BarcelonaVerified email at uab.cat
Valentin IglesiasMedical University of BiałystokVerified email at uab.cat
Karol KamelInstitute of Bioorganic Chemistry, PASVerified email at ibch.poznan.pl
Ora Schueler-FurmanHebrew University, Jerusalem, IsraelVerified email at mail.huji.ac.il
Daniel SzulczykAssociate Professor, Medical University of WarsawVerified email at wum.edu.pl
Mateusz ZalewskiLaboratory of Computational Biology, Biological and Chemical Research Centre, University of WarsawVerified email at uw.edu.pl
Andrzej KloczkowskiProfessor of Pediatrics, The Ohio State University, Institute for Genomic Medicine, NCHVerified email at osu.edu
Nawsad AlamUniversity of OxfordVerified email at bioch.ox.ac.uk
Javier Garcia-PardoProfessor in Biochemistry and Molecular Biology, IBB-Universitat Autonoma de BarcelonaVerified email at uab.cat

Sebastian Kmiecik

Laboratory of Computational Biology, Biological and Chemical Research Centre, University of Warsaw

Verified email at chem.uw.edu.pl - Homepage

structural biology protein modeling peptide docking drug design bioinformatics


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Coarse-Grained Protein Models and Their Applications S Kmiecik, D Gront, M Kolinski, L Wieteska, AE Dawid, A Kolinski Chemical Reviews 116 (14), 7898-7936, 2016	1145	2016
CABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site M Kurcinski, M Jamroz, M Blaszczyk, A Kolinski, S Kmiecik Nucleic acids research 43 (W1), W419-W424, 2015	397	2015
CABS-flex 2.0: a web server for fast simulations of flexibility of protein structures A Kuriata, AM Gierut, T Oleniecki, MP Ciemny, A Kolinski, M Kurcinski, ... Nucleic acids research 46 (W1), W338-W343, 2018	373	2018
Protein–peptide docking: opportunities and challenges M Ciemny, M Kurcinski, K Kamel, A Kolinski, N Alam, O Schueler-Furman, ... Drug discovery today 23 (8), 1530-1537, 2018	303	2018
AGGRESCAN3D (A3D): server for prediction of aggregation properties of protein structures R Zambrano, M Jamroz, A Szczasiuk, J Pujols, S Kmiecik, S Ventura Nucleic acids research 43 (W1), W306-W313, 2015	254	2015
CABS-flex: server for fast simulation of protein structure fluctuations M Jamroz, A Kolinski, S Kmiecik Nucleic acids research, W427-W431, 2013	181	2013
Modeling of protein–peptide interactions using the CABS-dock web server for binding site search and flexible docking M Blaszczyk, M Kurcinski, M Kouza, L Wieteska, A Debinski, A Kolinski, ... Methods 93, 72-83, 2016	179	2016
Backbone building from quadrilaterals: a fast and accurate algorithm for protein backbone reconstruction from alpha carbon coordinates D Gront, S Kmiecik, A Kolinski Journal of computational chemistry 28 (9), 1593-1597, 2007	142	2007
Aggrescan3D (A3D) 2.0: prediction and engineering of protein solubility A Kuriata, V Iglesias, J Pujols, M Kurcinski, S Kmiecik, S Ventura Nucleic acids research 47 (W1), W300–W307, 2019	139	2019
Folding pathway of the B1 domain of protein G explored by multiscale modeling S Kmiecik, A Kolinski Biophysical journal 94 (3), 726-736, 2008	136	2008
Characterization of protein-folding pathways by reduced-space modeling S Kmiecik, A Kolinski Proceedings of the National Academy of Sciences 104 (30), 12330-12335, 2007	116	2007
CABS-fold: server for the de novo and consensus-based prediction of protein structure M Blaszczyk, M Jamroz, S Kmiecik, A Kolinski Nucleic acids research 41 (W1), W406-W411, 2013	109	2013
CABS-flex standalone: a simulation environment for fast modeling of protein flexibility M Kurcinski, T Oleniecki, MP Ciemny, A Kuriata, A Kolinski, S Kmiecik Bioinformatics 35 (4), 694-695, 2019	105	2019
CABS-flex predictions of protein flexibility compared with NMR ensembles M Jamroz, A Kolinski, S Kmiecik Bioinformatics 30 (15), 2150-2154, 2014	97	2014
Consistent view of protein fluctuations from all-atom molecular dynamics and coarse-grained dynamics with knowledge-based force-field M Jamroz, M Orozco, A Kolinski, S Kmiecik Journal of Chemical Theory and Computation 9 (1), 119-125, 2013	97	2013
Flexible docking of peptides to proteins using CABS‐dock M Kurcinski, A Badaczewska‐Dawid, M Kolinski, A Kolinski, S Kmiecik Protein Science 29 (1), 211-222, 2020	74	2020
CABS-dock standalone: a toolbox for flexible protein–peptide docking M Kurcinski, M Pawel Ciemny, T Oleniecki, A Kuriata, ... Bioinformatics 35 (20), 4170–4172, 2019	69	2019
Computational reconstruction of atomistic protein structures from coarse-grained models AE Badaczewska-Dawid, A Kolinski, S Kmiecik Computational and Structural Biotechnology Journal 18, 162-176, 2020	64	2020
Modeling of protein structural flexibility and large-scale dynamics: Coarse-grained simulations and elastic network models S Kmiecik, M Kouza, AE Badaczewska-Dawid, A Kloczkowski, A Kolinski International journal of molecular sciences 19 (11), 3496, 2018	62	2018
Towards the high-resolution protein structure prediction. Fast refinement of reduced models with all-atom force field S Kmiecik, D Gront, A Kolinski BMC structural biology 7, 1-11, 2007	62	2007

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