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Bogacz I, Makita H, Simon PS, Zhang M, Doyle MD, Chatterjee R, Fransson T, Weninger C, Fuller F, Gee L, Sato T, Seaberg M, Alonso-Mori R, Bergmann U, Yachandra VK, Kern J, Yano J. Room temperature X-ray absorption spectroscopy of metalloenzymes with drop-on-demand sample delivery at XFELs. PURE APPL CHEM 2023; 95:891-897. [PMID: 38013689 PMCID: PMC10505480 DOI: 10.1515/pac-2023-0213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2023]
Abstract
X-ray crystallography and X-ray spectroscopy using X-ray free electron lasers plays an important role in understanding the interplay of structural changes in the protein and the chemical changes at the metal active site of metalloenzymes through their catalytic cycles. As a part of such an effort, we report here our recent development of methods for X-ray absorption spectroscopy (XAS) at XFELs to study dilute biological samples, available in limited volumes. Our prime target is Photosystem II (PS II), a multi subunit membrane protein complex, that catalyzes the light-driven water oxidation reaction at the Mn4CaO5 cluster. This is an ideal system to investigate how to control multi-electron/proton chemistry, using the flexibility of metal redox states, in coordination with the protein and the water network. We describe the method that we have developed to collect XAS data using PS II samples with a Mn concentration of <1 mM, using a drop-on-demand sample delivery method.
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Affiliation(s)
- Isabel Bogacz
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Hiroki Makita
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Philipp S. Simon
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Miao Zhang
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Margaret D. Doyle
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Ruchira Chatterjee
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Thomas Fransson
- Department of Theoretical chemistry and Biology, KTH Royal Institute of Technology, Stockholm, Sweden
| | | | - Franklin Fuller
- LCLS, SLAC National Accelerator Laboratory, 94025, Menlo Park, CA, USA
| | - Leland Gee
- LCLS, SLAC National Accelerator Laboratory, 94025, Menlo Park, CA, USA
| | - Takahiro Sato
- LCLS, SLAC National Accelerator Laboratory, 94025, Menlo Park, CA, USA
| | - Matthew Seaberg
- LCLS, SLAC National Accelerator Laboratory, 94025, Menlo Park, CA, USA
| | | | - Uwe Bergmann
- Department of Physics, University of Wisconsin-Madison, 53706, Madison, WI, USA
| | - Vittal K. Yachandra
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Jan Kern
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
| | - Junko Yano
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, 94720, Berkeley, CA, USA
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Blaj G. Dead-time correction for spectroscopic photon-counting pixel detectors. J Synchrotron Radiat 2019; 26:1621-1630. [PMID: 31490152 DOI: 10.1107/s1600577519007409] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2019] [Accepted: 05/21/2019] [Indexed: 06/10/2023]
Abstract
Modern photon-counting pixel detectors have enabled a revolution in applications at synchrotron light sources and beyond in the last decade. One of the limitations of the current detectors is their reduced counting linearity or even paralysis at high counting rates, due to dead-time which results in photon pile-up. Existing dead-time and pile-up models fail to reproduce the complexity of dead-time effects on photon-counting, resulting in empirical calibrations for particular detectors at best, imprecise linearization methods, or no linearization. This problem will increase in the future as many synchrotron light sources plan significant brilliance upgrades and free-electron lasers plan moving to a quasi-continuous operation mode. Presented here are the first models that use the actual behavior of the analog pre-amplifiers in spectroscopic photon-counting pixel detectors with constant current discharge (e.g. the Medipix and CPix families of detectors) to deduce more accurate analytical models and optimal linearization methods. In particular, for detectors with at least two counters per pixel, the need for calibration, or previous knowledge of the detector and beam parameters (dead-time, integration time, large sets of synchrotron filling patterns), is completely eliminated. This is summarized in several models of increasing complexity and accuracy. Finally, a general empirical approach is presented, applicable to any particular cases where the analytical approach is not sufficiently precise.
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Affiliation(s)
- Gabriel Blaj
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
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Abstract
Current trends for X-ray imaging detectors based on hybrid and monolithic detector technologies are reviewed. Hybrid detectors with photon-counting pixels have proven to be very powerful tools at synchrotrons. Recent developments continue to improve their performance, especially for higher spatial resolution at higher count rates with higher frame rates. Recent developments for X-ray free-electron laser (XFEL) experiments provide high-frame-rate integrating detectors with both high sensitivity and high peak signal. Similar performance improvements are sought in monolithic detectors. The monolithic approach also offers a lower noise floor, which is required for the detection of soft X-ray photons. The link between technology development and detector performance is described briefly in the context of potential future capabilities for X-ray imaging detectors.
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Affiliation(s)
- Takaki Hatsui
- RIKEN SPring-8 Center, RIKEN, 1-1, Koto, Sayo, Hyogo 679-5148, Japan
| | - Heinz Graafsma
- Photon-Science Detector Group, DESY, Hamburg, Germany
- Mid-Sweden University, Sundsvall, Sweden
- Correspondence e-mail:
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Blaj G, Caragiulo P, Carini G, Carron S, Dragone A, Freytag D, Haller G, Hart P, Hasi J, Herbst R, Herrmann S, Kenney C, Markovic B, Nishimura K, Osier S, Pines J, Reese B, Segal J, Tomada A, Weaver M. X-ray detectors at the Linac Coherent Light Source. J Synchrotron Radiat 2015; 22:577-83. [PMID: 25931071 PMCID: PMC4416673 DOI: 10.1107/s1600577515005317] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2014] [Accepted: 03/15/2015] [Indexed: 05/21/2023]
Abstract
Free-electron lasers (FELs) present new challenges for camera development compared with conventional light sources. At SLAC a variety of technologies are being used to match the demands of the Linac Coherent Light Source (LCLS) and to support a wide range of scientific applications. In this paper an overview of X-ray detector design requirements at FELs is presented and the various cameras in use at SLAC are described for the benefit of users planning experiments or analysts looking at data. Features and operation of the CSPAD camera, which is currently deployed at LCLS, are discussed, and the ePix family, a new generation of cameras under development at SLAC, is introduced.
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Affiliation(s)
- Gabriel Blaj
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Pietro Caragiulo
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Gabriella Carini
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
- Correspondence e-mail:
| | - Sebastian Carron
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Angelo Dragone
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Dietrich Freytag
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Gunther Haller
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Philip Hart
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Jasmine Hasi
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Ryan Herbst
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Sven Herrmann
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Chris Kenney
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Bojan Markovic
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Kurtis Nishimura
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Shawn Osier
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Jack Pines
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Benjamin Reese
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Julie Segal
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Astrid Tomada
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Matt Weaver
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
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