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Khakurel KP, Nemergut M, Pant P, Savko M, Andreasson J, Žoldák G. On-the-fly resolution enhancement in X-ray protein crystallography using electric field. EUROPEAN BIOPHYSICS JOURNAL : EBJ 2025; 54:89-95. [PMID: 39841168 PMCID: PMC11880155 DOI: 10.1007/s00249-025-01731-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2024] [Revised: 12/19/2024] [Accepted: 01/04/2025] [Indexed: 01/23/2025]
Abstract
X-ray crystallography has tremendously served structural biology by routinely providing high-resolution 3D structures of macromolecules. The extent of information encoded in the X-ray crystallography is proportional to which resolution the crystals diffract and the structure can be refined to. Therefore, there is a continuous effort to obtain high-quality crystals, especially for those proteins, which are considered difficult to crystallize into high-quality protein crystals of suitable sizes for X-ray crystallography. Efforts in enhancing the resolution in X-ray crystallography have also been made by optimizing crystallization protocols using external stimuli such as an electric field and magnetic field during the crystallization. Here, we present the feasibility of on-the-fly post-crystallization resolution enhancement of the protein crystal diffraction by applying a high-voltage electric field. The electric field between 2 and 11 kV/cm, which was applied after mounting the crystals in the beamline, resulted in the enhancement of the resolution. The crystal diffraction quality improved progressively with the exposure time. Moreover, we also find that upto defined electric field threshold, the protein structure remains largely unperturbed, a conclusion further supported by molecular dynamics simulations.
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Affiliation(s)
- Krishna Prasad Khakurel
- ELI Beamlines Facility, The Extreme Light Infrastructure ERIC, Za Radnicí 835, 25241, Dolní Břežany, Czech Republic.
| | - Michal Nemergut
- Center for Interdisciplinary Biosciences, Technology and Innovation Park, P. J. Šafárik University, Košice, Slovakia
| | - Purbaj Pant
- ELI Beamlines Facility, The Extreme Light Infrastructure ERIC, Za Radnicí 835, 25241, Dolní Břežany, Czech Republic
| | | | - Jakob Andreasson
- ELI Beamlines Facility, The Extreme Light Infrastructure ERIC, Za Radnicí 835, 25241, Dolní Břežany, Czech Republic
| | - Gabriel Žoldák
- Faculty of Sciences, P. J. Šafárik University, Košice, Slovakia
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Lin YC, Masquelier E, Al Sabeh Y, Sepunaru L, Gordon MJ, Morse DE. Voltage-calibrated, finely tunable protein assembly. J R Soc Interface 2023; 20:20230183. [PMID: 37403486 PMCID: PMC10320351 DOI: 10.1098/rsif.2023.0183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 06/12/2023] [Indexed: 07/06/2023] Open
Abstract
Neuronally triggered phosphorylation drives the calibrated and cyclable assembly of the reflectin signal transducing proteins, resulting in their fine tuning of colours reflected from specialized skin cells in squid for camouflage and communication. In close parallel to this physiological behaviour, we demonstrate for the first time that electrochemical reduction of reflectin A1, used as a surrogate for charge neutralization by phosphorylation, triggers voltage-calibrated, proportional and cyclable control of the size of the protein's assembly. Electrochemically triggered condensation, folding and assembly were simultaneously analysed using in situ dynamic light scattering, circular dichroism and UV absorbance spectroscopies. The correlation of assembly size with applied potential is probably linked to reflectin's mechanism of dynamic arrest, which is controlled by the extent of neuronally triggered charge neutralization and the corresponding fine tuning of colour in the biological system. This work opens a new perspective on electrically controlling and simultaneously observing reflectin assembly and, more broadly, provides access to manipulate, observe and electrokinetically control the formation of intermediates and conformational dynamics of macromolecular systems.
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Affiliation(s)
- Yin-Chen Lin
- Institute for Collaborative Biotechnologies, University of California, Santa Barbara, CA 93106, USA
- Department of Chemical Engineering, University of California, Santa Barbara, CA 93106, USA
| | - Eloise Masquelier
- Institute for Collaborative Biotechnologies, University of California, Santa Barbara, CA 93106, USA
- Materials Department, University of California, Santa Barbara, CA 93106, USA
| | - Yahya Al Sabeh
- Institute for Collaborative Biotechnologies, University of California, Santa Barbara, CA 93106, USA
- Department of Molecular, Cellular and Developmental Biology, University of California, Santa Barbara, CA 93106, USA
| | - Lior Sepunaru
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, CA 93106, USA
| | - Michael J. Gordon
- Institute for Collaborative Biotechnologies, University of California, Santa Barbara, CA 93106, USA
- Department of Chemical Engineering, University of California, Santa Barbara, CA 93106, USA
| | - Daniel E. Morse
- Institute for Collaborative Biotechnologies, University of California, Santa Barbara, CA 93106, USA
- Department of Molecular, Cellular and Developmental Biology, University of California, Santa Barbara, CA 93106, USA
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