| A structural biology community assessment of AlphaFold2 applications M Akdel, DEV Pires, EP Pardo, J Jänes, AO Zalevsky, B Mészáros, ... Nature Structural & Molecular Biology 29 (11), 1056-1067, 2022 | 411 | 2022 |
| Templates are available to model nearly all complexes of structurally characterized proteins PJ Kundrotas, Z Zhu, J Janin, IA Vakser Proceedings of the National Academy of Sciences 109 (24), 9438-9441, 2012 | 221 | 2012 |
| Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: a CASP‐CAPRI experiment MF Lensink, S Velankar, A Kryshtafovych, SY Huang, ... Proteins: Structure, Function, and Bioinformatics 84, 323-348, 2016 | 168 | 2016 |
| Towards a structurally resolved human protein interaction network DF Burke, P Bryant, I Barrio-Hernandez, D Memon, G Pozzati, A Shenoy, ... Nature Structural & Molecular Biology 30 (2), 216-225, 2023 | 145 | 2023 |
| Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search P Bryant, G Pozzati, W Zhu, A Shenoy, P Kundrotas, A Elofsson Nature communications 13 (1), 6028, 2022 | 128 | 2022 |
| 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 | 120 | 2019 |
| Electrostatic properties of protein-protein complexes PJ Kundrotas, E Alexov Biophysical journal 91 (5), 1724-1736, 2006 | 110 | 2006 |
| Docking by structural similarity at protein‐protein interfaces R Sinha, PJ Kundrotas, IA Vakser Proteins: Structure, Function, and Bioinformatics 78 (15), 3235-3241, 2010 | 104 | 2010 |
| 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 | 94 | 2021 |
| Dockground: a comprehensive data resource for modeling of protein complexes PJ Kundrotas, I Anishchenko, T Dauzhenka, I Kotthoff, D Mnevets, ... Protein Science 27 (1), 172-181, 2018 | 88 | 2018 |
| Optimization of electrostatic interactions in protein-protein complexes K Brock, K Talley, K Coley, P Kundrotas, E Alexov Biophysical journal 93 (10), 3340-3352, 2007 | 67 | 2007 |
| PROTCOM: searchable database of protein complexes enhanced with domain–domain structures PJ Kundrotas, E Alexov Nucleic acids research 35 (suppl_1), D575-D579, 2007 | 64 | 2007 |
| Predicting 3D structures of protein-protein complexes IA Vakser, P Kundrotas Current pharmaceutical biotechnology 9 (2), 57-66, 2008 | 63 | 2008 |
| Blind prediction of interfacial water positions in CAPRI MF Lensink, IH Moal, PA Bates, PL Kastritis, ASJ Melquiond, E Karaca, ... Proteins: Structure, Function, and Bioinformatics 82 (4), 620-632, 2014 | 62 | 2014 |
| On the electrostatic component of protein-protein binding free energy K Talley, C Ng, M Shoppell, P Kundrotas, E Alexov PMC biophysics 1, 1-23, 2008 | 62 | 2008 |
| Homology-based modeling of 3D structures of protein–protein complexes using alignments of modified sequence profiles PJ Kundrotas, MF Lensink, E Alexov International journal of biological macromolecules 43 (2), 198-208, 2008 | 60 | 2008 |
| Predicting residue contacts using pragmatic correlated mutations method: reducing the false positives PJ Kundrotas, EG Alexov BMC bioinformatics 7, 1-9, 2006 | 60 | 2006 |
| Evaluation of AlphaFold-Multimer prediction on multi-chain protein complexes W Zhu, A Shenoy, P Kundrotas, A Elofsson Bioinformatics 39 (7), btad424, 2023 | 59 | 2023 |
| GWIDD: genome-wide protein docking database PJ Kundrotas, Z Zhu, IA Vakser Nucleic acids research 38 (suppl_1), D513-D517, 2010 | 52 | 2010 |
| On the Ising model for the simple cubic lattice R Häggkvist, A Rosengren, PH Lundow, K Markström, D Andrén, ... Advances in Physics 56 (5), 653-755, 2007 | 50 | 2007 |
