Molden 2.0: quantum chemistry meets proteins
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Updated: Feb 25, 2026

Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
Gijs Schaftenaar1, Elias Vlieg2, Gert Vriend3
1CMBI, Radboudumc, Nijmegen, The Netherlands. Gijs.Schaftenaar@radboudumc.nl.
Abstract:
Since the first distribution of Molden in 1995 and the publication of the first article about this software in 2000 work on Molden has continued relentlessly. A few of the many improved or fully novel features such as improved and broadened support for quantum chemistry calculations, preparation of ligands for use in drug design related softwares, and working with proteins for the purpose of ligand docking.
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