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Kim J, Hyun H, Kim S, Hwang SM, Kim MJ, Jang D, Kim KS, Shin J, Kim S, Hwang J, Lee SY, Park E, Kim S, Eom I, Song C, Nam D. Development of the Nanobeam X-ray Experiments instrument at PAL-XFEL. JOURNAL OF SYNCHROTRON RADIATION 2025; 32:466-473. [PMID: 39937517 DOI: 10.1107/s1600577525000426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2024] [Accepted: 01/16/2025] [Indexed: 02/13/2025]
Abstract
A Nanobeam X-ray Experiments (NXE) instrument was developed and installed at the hard X-ray beamline of the Pohang Accelerator Laboratory X-ray Free Electron Laser. This instrument consists of a diagnostic system, focusing optics, an X-ray diffraction endstation and a femtosecond laser delivery system. The NXE instrument enables sophisticated X-ray experiments using nanofocused X-rays. At a 9.5 keV X-ray energy, the beam was successfully focused to 390 nm × 230 nm at the focal plane using Kirkpatrick-Baez mirrors. Following the successful commissioning experiments in December 2021 and April 2022, the instrument became available for regular user experiments in January 2023. The first user experiment was conducted in January 2024. This article provides detailed information on the beamline optics, the NXE instrument, and its performance and capabilities.
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Affiliation(s)
- Jangwoo Kim
- PLS-II Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - HyoJung Hyun
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Seonghan Kim
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Sun Min Hwang
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Myong Jin Kim
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Dogeun Jang
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Kyung Sook Kim
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Jaeyong Shin
- 4GSR Research Division, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Sejin Kim
- Department of Physics, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Junha Hwang
- Photon Science Center, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Sung Yun Lee
- Photon Science Center, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Eunyoung Park
- Photon Science Center, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Sangsoo Kim
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Intae Eom
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Changyong Song
- Photon Science Center, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - Daewoong Nam
- XFEL Beamline Department, Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
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Liu Y, Zhao Y, He Y, Zhang Z, Li A. Intelligent Control System for the Hard X-Ray Nanoprobe Beamline Beam Optimization Based on Automatic Evolution Algorithm and Expert System. SENSORS (BASEL, SWITZERLAND) 2024; 24:7211. [PMID: 39598988 PMCID: PMC11598044 DOI: 10.3390/s24227211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2024] [Revised: 11/02/2024] [Accepted: 11/06/2024] [Indexed: 11/29/2024]
Abstract
A synchrotron radiation beamline automatic optimization system has been used in the Shanghai Synchrotron Radiation Facility, improving the optimization efficiency, but it does not store and use the beamline adjusting experience, and cannot quickly optimize and store the experienced improvement. The expert system combined with an automatic evolutionary algorithm is used for intelligent beamline optimization; the algorithm initialization is optimized by invoking database experience, the convergence is quickly completed near the optimal solution, and the system's learning is improved by storing experience results. The software was designed on the EPICS (Version 3.15) platform, which was used to implement the algorithm in Python language, the expert database was developed with MongoDB tool (Version 4.0.27), and the upper application interface was designed with CSS software (Phoebus Version 4.7.2). The system was successfully tested on the BL13U hard X-ray nanoprobe beamline of Shanghai Synchrotron Radiation Facility. The results show that the maximum convergence time of a single objective with four-axis degrees of freedom is about 2 min, and the speed is increased by 15 times. The solution set obtained by using multi-objective two and four-axis degrees of freedom is better overall. The system can effectively improve the optimization efficiency and effect, and its universality can be extended to other synchrotron radiation devices and beamlines to promote the development of intelligent beamline modulation technology.
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Affiliation(s)
- Yuhao Liu
- School of Microelectronics, Shanghai University, Shanghai 200444, China;
- Shanghai Synchrotron Radiation Facility, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210, China
| | - Ying Zhao
- Shanghai Synchrotron Radiation Facility, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210, China
| | - Yan He
- Shanghai Synchrotron Radiation Facility, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210, China
| | - Zhaohong Zhang
- Shanghai Synchrotron Radiation Facility, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210, China
| | - Aiguo Li
- Shanghai Synchrotron Radiation Facility, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai 201210, China
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Ochmann M, Harich J, Ma R, Freibert A, Kim Y, Gopannagari M, Hong DH, Nam D, Kim S, Kim M, Eom I, Lee JH, Yorke BA, Kim TK, Huse N. UV photochemistry of the L-cystine disulfide bridge in aqueous solution investigated by femtosecond X-ray absorption spectroscopy. Nat Commun 2024; 15:8838. [PMID: 39397016 PMCID: PMC11471820 DOI: 10.1038/s41467-024-52748-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2024] [Accepted: 09/19/2024] [Indexed: 10/15/2024] Open
Abstract
The photolysis of disulfide bonds is implicated in denaturation of proteins exposed to ultraviolet light. Despite this biological relevance in stabilizing the structure of many proteins, the mechanisms of disulfide photolysis are still contested after decades of research. Herein, we report new insight into the photochemistry of L-cystine in aqueous solution by femtosecond X-ray absorption spectroscopy at the sulfur K-edge. We observe homolytic bond cleavage upon ultraviolet irradiation and the formation of thiyl radicals as the single primary photoproduct. Ultrafast thiyl decay due to geminate recombination proceeds at a quantum yield of >80 % within 20 ps. These dynamics coincide with the emergence of a secondary product, attributed to the generation of perthiyl radicals. From these findings, we suggest a mechanism of perthiyl radical generation from a vibrationally excited parent molecule that asymmetrically fragments along a carbon-sulfur bond. Our results point toward a dynamic photostability of the disulfide bridge in condensed-phase.
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Affiliation(s)
- Miguel Ochmann
- Department of Physics, University of Hamburg and Center for Free-Electron Laser Science, Hamburg, Germany
| | - Jessica Harich
- Department of Physics, University of Hamburg and Center for Free-Electron Laser Science, Hamburg, Germany
| | - Rory Ma
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
| | - Antonia Freibert
- Department of Physics, University of Hamburg and Center for Free-Electron Laser Science, Hamburg, Germany.
| | - Yujin Kim
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
| | - Madhusudana Gopannagari
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea
| | - Da Hye Hong
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea
| | - Daewoong Nam
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
- Photon Science Center, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Sangsoo Kim
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
| | - Minseok Kim
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
| | - Intae Eom
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
- Photon Science Center, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Jae Hyuk Lee
- Pohang Accelerator Laboratory, POSTECH, Pohang, Republic of Korea
- Photon Science Center, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Briony A Yorke
- School of Chemistry, University of Leeds, Leeds, United Kingdom
| | - Tae Kyu Kim
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea.
| | - Nils Huse
- Department of Physics, University of Hamburg and Center for Free-Electron Laser Science, Hamburg, Germany.
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Lee Y, Oang KY, Kim D, Ihee H. A comparative review of time-resolved x-ray and electron scattering to probe structural dynamics. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2024; 11:031301. [PMID: 38706888 PMCID: PMC11065455 DOI: 10.1063/4.0000249] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Accepted: 04/10/2024] [Indexed: 05/07/2024]
Abstract
The structure of molecules, particularly the dynamic changes in structure, plays an essential role in understanding physical and chemical phenomena. Time-resolved (TR) scattering techniques serve as crucial experimental tools for studying structural dynamics, offering direct sensitivity to molecular structures through scattering signals. Over the past decade, the advent of x-ray free-electron lasers (XFELs) and mega-electron-volt ultrafast electron diffraction (MeV-UED) facilities has ushered TR scattering experiments into a new era, garnering significant attention. In this review, we delve into the basic principles of TR scattering experiments, especially focusing on those that employ x-rays and electrons. We highlight the variations in experimental conditions when employing x-rays vs electrons and discuss their complementarity. Additionally, cutting-edge XFELs and MeV-UED facilities for TR x-ray and electron scattering experiments and the experiments performed at those facilities are reviewed. As new facilities are constructed and existing ones undergo upgrades, the landscape for TR x-ray and electron scattering experiments is poised for further expansion. Through this review, we aim to facilitate the effective utilization of these emerging opportunities, assisting researchers in delving deeper into the intricate dynamics of molecular structures.
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Affiliation(s)
| | - Key Young Oang
- Radiation Center for Ultrafast Science, Korea Atomic Energy Research Institute (KAERI), Daejeon 34057, South Korea
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Abstract
The X-ray free-electron laser of the Pohang Accelerator Laboratory (PAL-XFEL) was opened to users in 2017. Since then, significant progress has been made in PAL-XFEL operation and beamline experiments. This includes increasing the FEL pulse energy, increasing the FEL photon energy, generating self-seeding FEL, and trials of two-color operation. In the beamline, new instruments or endstations have been added or are being prepared. Overall, beamline operation has been stabilized since its initiation, which has enabled excellent scientific results through efficient user experiments. In this paper, we describe details of the recent progress of the PAL-XFEL.
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