Explaining Conformational Diversity in Protein Families through Molecular Motions - Optimization and learning for Data Science
Pré-Publication, Document De Travail Année : 2024

Explaining Conformational Diversity in Protein Families through Molecular Motions

Résumé

Proteins play a central role in biological processes, and understanding their conformational variability is crucial for unraveling their functional mechanisms. Recent advancements in high-throughput technologies have enhanced our knowledge of protein structures, yet predicting their multiple conformational states and motions remains challenging. This study introduces Dimensionality Analysis for protein Conformational Exploration (DANCE) for a systematic and comprehensive description of protein families conformational variability. DANCE accommodates both experimental and predicted structures. It is suitable for analysing anything from single proteins to superfamilies. Employing it, we clustered all experimentally resolved protein structures available in the Protein Data Bank into conformational collections and characterized them as sets of linear motions. The resource facilitates access and exploitation of the multiple states adopted by a protein and its homologs. Beyond descriptive analysis, we assessed classical dimensionality reduction techniques for sampling unseen states on a representative benchmark. This work improves our understanding of how proteins deform to perform their functions and opens ways to a standardised evaluation of methods designed to sample and generate protein conformations.
Fichier principal
Vignette du fichier
motionDB.pdf (23.75 Mo) Télécharger le fichier
Origine Fichiers produits par l'(les) auteur(s)
licence

Dates et versions

hal-04442287 , version 1 (06-02-2024)

Licence

Identifiants

  • HAL Id : hal-04442287 , version 1

Citer

Valentin Lombard, Sergei Grudinin, Elodie Laine. Explaining Conformational Diversity in Protein Families through Molecular Motions. 2024. ⟨hal-04442287⟩
310 Consultations
98 Téléchargements

Partager

More