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Modeling Structure and Absorption Spectra of the Bacteriophytochrome-Based Fluorescent Protein IFP1.4

preprint
submitted on 13.11.2019 and posted on 29.11.2019 by Igor Polyakov, Bella Grigorenko, Alexander Nemukhin

We report the results of quantum mechanics/molecular mechanics (QM/MM) simulations of structures and absorption spectra of the fluorescent protein IFP1.4 engineered from the chromophore-binding domain of Deinococcus radiodurans (DrCBD). In this work, we focus on different protonation states of the biliverdin chromophore in the red-absorbing form of the protein. To this goal, the protein with the all-protonated chromophore as well as the structures obtained by removal of protons from the biliverdin pyrrole rings to a suitable acceptor within the system are considered. Several quantum chemistry methods to compute the S0→S1 excitation energies are used in the QM part to estimate shifts in the absorption band maxima upon chromophore deprotonation.

Funding

Russian Science Foundation, 17-13-01051

History

Email Address of Submitting Author

anemukhin@yahoo.com

Institution

Lomonosov Moscow State University

Country

Russia

ORCID For Submitting Author

0000-0002-4992-6029

Declaration of Conflict of Interest

There is no conflict of interest

Version Notes

This is the first version of the manuscript

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