| Blind prediction of homo‐and hetero‐protein complexes: The CASP13‐CAPRI experiment MF Lensink, G Brysbaert, N Nadzirin, S Velankar, RAG Chaleil, T Gerguri, ... Proteins: Structure, Function, and Bioinformatics 87 (12), 1200-1221, 2019 | 85 | 2019 |
| Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment MF Lensink, G Brysbaert, T Mauri, N Nadzirin, S Velankar, RAG Chaleil, ... Proteins: Structure, Function, and Bioinformatics 89 (12), 1800-1823, 2021 | 45 | 2021 |
| Performance of protein-structure predictions with the physics-based UNRES force field in CASP11 P Krupa, MA Mozolewska, M Wiśniewska, Y Yin, Y He, AK Sieradzan, ... Bioinformatics 32 (21), 3270-3278, 2016 | 45 | 2016 |
| A general method for the derivation of the functional forms of the effective energy terms in coarse-grained energy functions of polymers. III. Determination of scale-consistent
A Liwo, AK Sieradzan, AG Lipska, C Czaplewski, IS Joung, ... The Journal of Chemical Physics 150 (15), 155104, 2019 | 37 | 2019 |
| An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12 C Keasar, LJ McGuffin, B Wallner, G Chopra, B Adhikari, D Bhattacharya, ... Scientific reports 8 (1), 1-18, 2018 | 20 | 2018 |
| Theory and practice of coarse-grained molecular dynamics of biologically important systems A Liwo, C Czaplewski, AK Sieradzan, AG Lipska, SA Samsonov, ... Biomolecules 11 (9), 1347, 2021 | 19 | 2021 |
| Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment EA Lubecka, AS Karczyńska, AG Lipska, AK Sieradzan, K Ziȩba, ... Journal of Molecular Graphics and Modelling 92, 154-166, 2019 | 18 | 2019 |
| Scale-consistent approach to the derivation of coarse-grained force fields for simulating structure, dynamics, and thermodynamics of biopolymers A Liwo, C Czaplewski, AK Sieradzan, EA Lubecka, AG Lipska, Ł Golon, ... Progress in Molecular Biology and Translational Science 170, 73-122, 2020 | 12 | 2020 |
| Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment A Antoniak, I Biskupek, KK Bojarski, C Czaplewski, A Giełdoń, M Kogut, ... Journal of Molecular Graphics and Modelling 108, 108008, 2021 | 11 | 2021 |
| Analysis of procollagen C-proteinase enhancer-1/glycosaminoglycan binding sites and of the potential role of calcium ions in the interaction J Potthoff, KK Bojarski, G Kohut, AG Lipska, A Liwo, E Kessler, ... International Journal of Molecular Sciences 20 (20), 5021, 2019 | 10 | 2019 |
| Molecular dynamics of protein A and a WW domain with a united-residue model including hydrodynamic interaction AG Lipska, SR Seidman, AK Sieradzan, A Giełdoń, A Liwo, HA Scheraga The Journal of Chemical Physics 144 (18), 184110, 2016 | 10 | 2016 |
| Studies of conformational changes of an arginine-binding protein from Thermotoga maritima in the presence and absence of ligand via molecular dynamics
AG Lipska, AK Sieradzan, P Krupa, MA Mozolewska, S DAuria, A Liwo Journal of molecular modeling 21 (3), 64, 2015 | 10 | 2015 |
| Improved consensus-fragment selection in template-assisted prediction of protein structures with the UNRES force field in CASP13 AS Karczyńska, K Ziȩba, U Uciechowska, MA Mozolewska, P Krupa, ... Journal of Chemical Information and Modeling 60 (3), 1844-1864, 2020 | 9 | 2020 |
| Modeling the structure, dynamics, and transformations of proteins with the UNRES force field AK Sieradzan, C Czaplewski, P Krupa, MA Mozolewska, AS Karczyńska, ... Protein folding: Methods and protocols, 399-416, 2022 | 8 | 2022 |
| Evolutionary diversification and characterization of the eubacterial gene family encoding DXR type II, an alternative isoprenoid biosynthetic enzyme L Carretero-Paulet, A Lipska, J Pérez-Gil, FJ Sangari, VA Albert, ... BMC evolutionary biology 13 (1), 1-18, 2013 | 8 | 2013 |
| Further analyses of APRIL/APRIL-receptor/glycosaminoglycan interactions by biochemical assays linked to computational studies M Marcisz, B Huard, AG Lipska, SA Samsonov Glycobiology 31 (7), 772-786, 2021 | 6 | 2021 |
| Shielding effect in protein folding AK Sieradzan, AG Lipska, EA Lubecka Journal of Molecular Graphics and Modelling 79, 118-132, 2018 | 6 | 2018 |
| Chauvot de Beauchêne I MF Lensink, G Brysbaert, N Nadzirin, S Velankar, RAG Chaleil, T Gerguri, ... Maigret, B, 1200-1221, 2019 | 5 | 2019 |
| Optimization of parallel implementation of UNRES package for coarse‐grained simulations to treat large proteins AK Sieradzan, J Sans‐Duñó, EA Lubecka, C Czaplewski, AG Lipska, ... Journal of Computational Chemistry 44 (4), 602-625, 2023 | 3 | 2023 |
| Extension of the Unres package for physics-based coarse-grained simulations of proteins and protein complexes to very large systems AK Sieradzan, CR Czaplewski, EA Lubecka, AG Lipska, AS Karczynska, ... Biophysical Journal 120 (3), 83a-84a, 2021 | 3 | 2021 |
