Revolutionizing Drug Discovery: Embracing Protein Dynamics and Flexibility for Better Predictions

November 6, 2025
Revolutionizing Drug Discovery: Embracing Protein Dynamics and Flexibility for Better Predictions
  • The story centers on methodological advances in capturing protein dynamics, including room-temperature X-ray crystallography, multi-temperature and multi-conformer modeling (qFit, FLEXR, mmCIF ensembles, qFit 3), and ensemble refinement as tools to reveal native-like flexibility.

  • Historical work showed that temperature, cryocooling, and crystal packing can distort protein structures, underscoring the need to reinterpret static images in drug design.

  • The overarching takeaway is a shift toward embracing conformational diversity as a native feature, not a flaw, to improve structure-based drug discovery.

  • At the core, the collection emphasizes improving drug discovery by accounting for protein flexibility and conformational ensembles in structural biology.

  • Practically, studies discuss artifacts from cryocooling, the importance of sampling heterogeneity, and methods that better predict catalysis and binding mechanisms in enzymes and drug targets.

  • Temperature effects, hydration networks, interfacial water, and dynamic binding sites are highlighted as factors that influence ligand binding predictions and docking accuracy.

  • Technological progress—from serial crystallography to neutron/X-ray methods and synchrotron-enabled approaches—broadens access to dynamic structural information.

  • Milestones include Fraser et al. on room-temperature ensembles, Keedy et al. on hidden backbone conformations, Burnley et al. on ensemble refinement, and 2022–2024 work on high-resolution dynamics and mmCIF encoding.

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