Adaptive frozen orbital treatment for the fragment molecular orbital method combined with density-functional tight-binding.
Yoshio NishimotoDmitri G FedorovPublished in: The Journal of chemical physics (2018)
The exactly analytic gradient is derived and implemented for the fragment molecular orbital (FMO) method combined with density-functional tight-binding (DFTB) using adaptive frozen orbitals. The response contributions which arise from freezing detached molecular orbitals on the border between fragments are computed by solving Z-vector equations. The accuracy of the energy, its gradient, and optimized structures is verified on a set of representative inorganic materials and polypeptides. FMO-DFTB is applied to optimize the structure of a silicon nano-wire, and the results are compared to those of density functional theory and experiment. FMO accelerates the DFTB calculation of a boron nitride nano-ring with 7872 atoms by a factor of 406. Molecular dynamics simulations using FMO-DFTB applied to a 10.7 μm chain of boron nitride nano-rings, consisting of about 1.2 × 106 atoms, reveal the rippling and twisting of nano-rings at room temperature.
Keyphrases
- density functional theory
- molecular dynamics simulations
- room temperature
- molecular dynamics
- blood brain barrier
- quantum dots
- high resolution
- ionic liquid
- genome wide
- magnetic resonance imaging
- gene expression
- reduced graphene oxide
- dna methylation
- gold nanoparticles
- computed tomography
- dna binding
- magnetic resonance
- visible light
- transcription factor
- diffusion weighted imaging
- combination therapy