Docking and scoring protein interactions: CAPRI 2009

By Marc F. Lensink, Shoshana J. Wodak. 2010

242 citations recorded by the source corpus.

Subfields: Computational Theory and Mathematics, Molecular Biology

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Computational Theory and Mathematics

1. Petras J. Kundrotas
2. Yang Zhang
3. András Szilágyi
4. Dima Kozakov
5. Ilya A. Vakser
6. Sandor Vajda
7. Lim Heo
8. David R. Hall

In Molecular Biology

1. Ilya A. Vakser
2. Petras J. Kundrotas
3. András Szilágyi
4. Dima Kozakov
5. Sandor Vajda
6. Yang Zhang
7. Lim Heo
8. Björn Wallner

Citations in the corpus

• Blind prediction of homo- and hetero-protein complexes: The CASP13-CAPRI experiment (2019, neutral): “tored in the evaluated models and may be cause for disqualifying the submission.(43,44) 5.”
• A Unified Conformational Selection and Induced Fit Approach to Protein-Peptide Docking (2013, unknown): “This integrative approach has proven its success in the blind international experiment CAPRI (Critical Assessment of PRedicted Interactions) [34] where it stands as one of the top-performing methods [35].”
• Application of asymmetric statistical potentials to antibody-protein docking (2012, methodology): “According to the last round of the blind protein docking experiment CAPRI (Lensink and Wodak, 2010), automated protein docking servers performed comparably well with the top human predictor groups, without the use of biological information.”
• Prediction of homo- and hetero-protein complexes by protein docking and template-based modeling: a CASP-CAPRI experiment (2016, unknown): “The seemingly superior performance of scorers over dockers has been observed in previous CAPRI assess-ments16,19 where it was attributed in part to the generally poor ranking of models by predictors.”
• Rosetta FlexPepDock web server—high resolution modeling of peptide–protein interactions (2011, background): “While a plethora of web servers is available for the docking of a pair of globular proteins [e.g. RosettaDock (16), HADDOCK (17), PatchDock (18), ClusPro (19) and more; see CAPRI (20)], these are not intended for the docking of peptides.”
• Protein structure modeling with MODELLER. (2014, unknown): “In the case where only templates for the individual subunits in the complex can be found, comparative models can be docked in a pairwise fashion by molecular docking(28,29) or assembled based on various experimental data to generate approximate models of the complex using a wide variety of integrati”