Constraint Decoupled Latent Diffusion for Protein Backmapping.

ABSTRACT: Coarse-grained (CG) molecular dynamics simulations enable efficient exploration of protein conformational ensembles. However, reconstructing atomic details from CG structures (backmapping) remains a challenging problem. Current approaches face an inherent trade-off between maintaining atomistic accuracy and exploring diverse conformations, often necessitating complex constraint handling or extensive refinement steps. To address these challenges, we introduce a novel two-stage framework, named CODLAD (COnstraint Decoupled LAtent Diffusion). This framework first compresses atomic structures into discrete latent representations, explicitly embedding structural constraints, thereby decoupling constraint handling from generation. Subsequently, it performs efficient denoising diffusion in this l

SUBMITTER: Han X 

PROVIDER: S-EPMC12805577 | biostudies-literature | 2026 Jan

REPOSITORIES: biostudies-literature