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Atomic-level evolutionary information improves protein-protein interface scoring

Abstract : The crucial role of protein interactions and the difficulty in characterising them experimentally strongly motivates the development of computational approaches for structural prediction. Even when protein-protein docking samples correct models, current scoring functions struggle to discriminate them from incorrect decoys. The previous incorporation of conservation and coevolution information has shown promise for improving protein-protein scoring. Here, we present a novel strategy to integrate atomic-level evolutionary information into different types of scoring functions to improve their docking discrimination. We applied this general strategy to our residue-level statistical potential from InterEvScore and to two atomic-level scores, SOAP-PP and Rosetta interface score (ISC). Including evolutionary information from as few as ten homologous sequences improves the top 10 success rates of these individual scores by respectively 6.5, 6 and 13.5 percentage points, on a large benchmark of 752 docking cases. The best individual homology-enriched score reaches a top 10 success rate of 34.4%. A consensus approach based on the complementarity between different homology-enriched scores further increases the top 10 success rate to 40%. All data used for benchmarking and scoring results, as well as pipelining scripts, are available at http://biodev.cea.fr/interevol/interevdata/
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https://hal-cea.archives-ouvertes.fr/cea-02978447
Contributor : Jessica Andreani Connect in order to contact the contributor
Submitted on : Monday, October 26, 2020 - 2:30:26 PM
Last modification on : Monday, December 13, 2021 - 9:16:40 AM
Long-term archiving on: : Wednesday, January 27, 2021 - 6:54:20 PM

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Chloé Quignot, Pierre Granger, Pablo Chacón, Raphael Guerois, Jessica Andreani. Atomic-level evolutionary information improves protein-protein interface scoring. 2020. ⟨cea-02978447v1⟩

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