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Deciphering the Allosteric Process of Phaeodactylum tricornutum Aureochrome 1a LOV Domain

preprint
submitted on 26.06.2020, 18:48 and posted on 30.06.2020, 04:43 by Hao Tian, Francesco Trozzi, Brian Zoltowski, Peng Tao
The conformational-driven allosteric protein diatom Phaeodactylum tricornutum aureochrome 1a (PtAu1a) di ers from other light-oxygen-voltage (LOV) proteins for its uncommon structural topology. The mechanism of signaling transduction in PtAu1a LOV domain (AuLOV) including flanking helices remains unclear because of this dissimilarity, which hinders the study of PtAu1a as an optogenetic tool. To clarify this mechanism, we employed a combination of tree-based machine learning models, Markov state models, machine learning based community analysis and transition path theory to quantitatively analyze the allosteric process. Our results are in good agreement with reported experimental findings and revealed a previously overlooked C-alpha helix and linkers as important in promoting the protein conformational change. This integrated approach can be considered as a general workflow and applied on other allosteric proteins to provide detailed information about their allosteric mechanisms.

Funding

Probing Hidden Conformational Space and Dynamical States of Circadian Clock Proteins through Rigid Residue Scan and Machine Learning

National Institute of General Medical Sciences

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Allosteric Regulation of Circadian Clock Photoreceptors

National Institute of General Medical Sciences

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History

Email Address of Submitting Author

haot@smu.edu

Institution

Southern Methodist University

Country

United States of America

ORCID For Submitting Author

0000-0002-0186-9811

Declaration of Conflict of Interest

No conflict of interest

Version Notes

version one

Exports