Exploring Molecular Energy Landscapes by Coupling the DFTB Potential with a Tree-Based Stochastic Algorithm: Investigation of the Conformational Diversity of Phthalates.
Valentin MiliaNathalie TarratChristophe ZanonJuan CortesMathias RapacioliPublished in: Journal of chemical information and modeling (2024)
Exploring the global energy landscape of relatively large molecules at the quantum level is a challenging problem. In this work, we report the coupling of a nonredundant conformational space exploration method, namely, the robotics-inspired iterative global exploration and local optimization (IGLOO) algorithm, with the quantum-chemical density functional tight binding (DFTB) potential. The application of this fast and efficient computational approach to three close-sized molecules of the phthalate family (DBP, BBP, and DEHP) showed that they present different conformational landscapes. These differences have been rationalized by making use of descriptors based on distances and dihedral angles. Coulomb interactions, steric hindrance, and dispersive interactions have been found to drive the geometric properties. A strong correlation has been evidenced between the two dihedral angles describing the side-chain orientation of the phthalate molecules. Our approach identifies low-energy minima without prior knowledge of the potential energy surface, paving the way for future investigations into transition paths and states.
Keyphrases
- molecular dynamics
- single molecule
- molecular dynamics simulations
- machine learning
- deep learning
- human health
- healthcare
- blood brain barrier
- risk assessment
- room temperature
- genome wide
- computed tomography
- single cell
- neural network
- magnetic resonance
- dna methylation
- mass spectrometry
- high resolution
- climate change
- energy transfer
- binding protein
- liquid chromatography
- tandem mass spectrometry