Excited States Computation of Models of Phenylalanine Protein Chains: TD-DFT and Composite CC2/TD-DFT Protocols.
Marine LebelThibaut VeryEric GloaguenBenjamin TardivelMichel MonsValérie BrennerPublished in: International journal of molecular sciences (2022)
The present benchmark calculations testify to the validity of time-dependent density functional theory (TD-DFT) when exploring the low-lying excited states potential energy surfaces of models of phenylalanine protein chains. Among three functionals suitable for systems exhibiting charge-transfer excited states, LC-ωPBE, CAM-B3LYP, and ωB97X-D, which were tested on a reference peptide system, we selected the ωB97X-D functional, which gave the best results compared to the approximate coupled-cluster singles and doubles (CC2) method. A quantitative agreement for both the geometrical parameters and the vibrational frequencies was obtained for the lowest singlet excited state (a ππ* state) of the series of capped peptides. In contrast, only a qualitative agreement was met for the corresponding adiabatic zero-point vibrational energy (ZPVE)-corrected excitation energies. Two composite protocols combining CC2 and DFT/TD-DFT methods were then developed to improve these calculations. Both protocols substantially reduced the error compared to CC2 and experiment, and the best of both even led to results of CC2 quality at a lower cost, thus providing a reliable alternative to this method for very large systems.
Keyphrases
- density functional theory
- molecular dynamics
- energy transfer
- amino acid
- protein protein
- magnetic resonance
- magnetic resonance imaging
- binding protein
- computed tomography
- small molecule
- electron transfer
- high resolution
- risk assessment
- staphylococcus aureus
- escherichia coli
- quality improvement
- quantum dots
- molecular docking