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Network analysis of chromophore binding site in LOV domain
Indian Inst Sci Educ & Res Mohali, Dept Chem Sci, Mohali, Punjab, India..
Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Materials Theory. Karolinska Inst, Inst Environm Med, Div Immunol & Chron Dis, Stockholm, Sweden..ORCID iD: 0000-0003-4879-2302
Jimma Univ, Jimma Inst Technol, Sch Biomed Engn, Jimma 378, Ethiopia..
Indian Inst Technol Guwahati, Jyoti & Bhupat Mehta Sch Hlth Sci & Technol, Gauhati 781039, Assam, India..
2023 (English)In: Computers in Biology and Medicine, ISSN 0010-4825, E-ISSN 1879-0534, Vol. 161, article id 106996Article in journal (Refereed) Published
Abstract [en]

Photoreceptor proteins are versatile toolbox for developing biosensors for optogenetic applications. These molecular tools get activated upon illumination of blue light, which in turn offers a non-invasive method for gaining high spatiotemporal resolution and precise control of cellular signal transduction. The Light-Oxygen-Voltage (LOV) domain family of proteins is a well-recognized system for constructing optogenetic devices. Translation of these proteins into efficient cellular sensors is possible by tuning their photochemistry lifetime. However, the bottleneck is the need for more understanding of the relationship between the protein environment and photocycle kinetics. Significantly, the effect of the local environment also modulates the electronic structure of chromophore, which perturbs the electrostatic and hydrophobic interaction within the binding site. This work highlights the critical factors hidden in the protein networks, linking with their experimental photocycle kinetics. It presents an opportunity to quantitatively examine the alternation in chromophore's equilibrium geometry and identify details which have substantial implications in designing synthetic LOV constructs with desirable photocycle efficiency.

Place, publisher, year, edition, pages
PERGAMON-ELSEVIER SCIENCE LTD Elsevier, 2023. Vol. 161, article id 106996
Keywords [en]
LOV domain, Protein network, Normal mode analysis, Hybrid QM/MM, Flavin
National Category
Biochemistry Molecular Biology Cell Biology
Identifiers
URN: urn:nbn:se:uu:diva-506991DOI: 10.1016/j.compbiomed.2023.106996ISI: 001009549100001PubMedID: 37201443OAI: oai:DiVA.org:uu-506991DiVA, id: diva2:1778691
Available from: 2023-07-03 Created: 2023-07-03 Last updated: 2025-02-20Bibliographically approved

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Panda, Pritam Kumar

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