Conformational Dependence of Isotropic Polarizabilities.
- Söderhjelm P Department of Chemistry and Applied Biosciences, Computational Science, ETH Zürich , Via Giuseppe Buffi 13, CH-6900 Lugano, Switzerland.
- Kongsted J Department of Physics and Chemistry, University of Southern Denmark , Campusvej 55, 5230 Odense M, Denmark.
- Ryde U Department of Theoretical Chemistry, Lund University , Chemical Centre, P.O. Box 124, SE-221 00 Lund, Sweden.
- 2015-11-27
Published in:
- Journal of chemical theory and computation. - 2011
English
We perform a statistical and energetic analysis of atomic polarizabilities obtained with the LoProp approach for all atoms in the avidin tetramer for 70 snapshots from molecular dynamics simulations with seven different biotin analogues, and from the crystal structure of the photosynthetic reaction center (in total 560 698 individual polarizabilities). Dynamic effects give a variation of the polarizabilities of 0.09 Å(3) on average. Atoms at different positions in the sequence show a variation of 0.14 Å(3) on average, caused by the conformational dependence of the polarizabilities. This variation gives errors of 2 and 1 kJ/mol for relative conformational and ligand-binding induction energies. Averaged elementwise or atom-type polarizabilities give larger errors, e.g., 9 and 7 kJ/mol, respectively, for the relative conformational energies. Therefore, we recommend that polarizabilities should be assigned atomwise (i.e., individual polarizabilities for each atom in all residues), in the same way as for charges. We provide such a set of extensively averaged polarizabilities (xAvPol) for all atoms in avidin and the photosynthetic reaction center, applicable at the B3LYP/aug-cc-pVTZ level, which is converged with respect to the basis-set limit.
- Language
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- English
- Open access status
- green
- Identifiers
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- DOI 10.1021/ct100714e
- PMID 26610132
- Persistent URL
- https://sonar.ch/global/documents/114140
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