Literature DB >> 26561117

Accurate determination of segmented X-ray detector geometry.

Oleksandr Yefanov, Valerio Mariani, Cornelius Gati, Thomas A White, Henry N Chapman, Anton Barty.   

Abstract

Recent advances in X-ray detector technology have resulted in the introduction of segmented detectors composed of many small detector modules tiled together to cover a large detection area. Due to mechanical tolerances and the desire to be able to change the module layout to suit the needs of different experiments, the pixels on each module might not align perfectly on a regular grid. Several detectors are designed to permit detector sub-regions (or modules) to be moved relative to each other for different experiments. Accurate determination of the location of detector elements relative to the beam-sample interaction point is critical for many types of experiment, including X-ray crystallography, coherent diffractive imaging (CDI), small angle X-ray scattering (SAXS) and spectroscopy. For detectors with moveable modules, the relative positions of pixels are no longer fixed, necessitating the development of a simple procedure to calibrate detector geometry after reconfiguration. We describe a simple and robust method for determining the geometry of segmented X-ray detectors using measurements obtained by serial crystallography. By comparing the location of observed Bragg peaks to the spot locations predicted from the crystal indexing procedure, the position, rotation and distance of each module relative to the interaction region can be refined. We show that the refined detector geometry greatly improves the results of experiments.

Mesh:

Year:  2015        PMID: 26561117      PMCID: PMC4646514          DOI: 10.1364/OE.23.028459

Source DB:  PubMed          Journal:  Opt Express        ISSN: 1094-4087            Impact factor:   3.894


  21 in total

1.  Nanoflow electrospinning serial femtosecond crystallography.

Authors:  Raymond G Sierra; Hartawan Laksmono; Jan Kern; Rosalie Tran; Johan Hattne; Roberto Alonso-Mori; Benedikt Lassalle-Kaiser; Carina Glöckner; Julia Hellmich; Donald W Schafer; Nathaniel Echols; Richard J Gildea; Ralf W Grosse-Kunstleve; Jonas Sellberg; Trevor A McQueen; Alan R Fry; Marc M Messerschmidt; Alan Miahnahri; M Marvin Seibert; Christina Y Hampton; Dmitri Starodub; N Duane Loh; Dimosthenis Sokaras; Tsu-Chien Weng; Petrus H Zwart; Pieter Glatzel; Despina Milathianaki; William E White; Paul D Adams; Garth J Williams; Sébastien Boutet; Athina Zouni; Johannes Messinger; Nicholas K Sauter; Uwe Bergmann; Junko Yano; Vittal K Yachandra; Michael J Bogan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-10-18

2.  Accurate macromolecular structures using minimal measurements from X-ray free-electron lasers.

Authors:  Johan Hattne; Nathaniel Echols; Rosalie Tran; Jan Kern; Richard J Gildea; Aaron S Brewster; Roberto Alonso-Mori; Carina Glöckner; Julia Hellmich; Hartawan Laksmono; Raymond G Sierra; Benedikt Lassalle-Kaiser; Alyssa Lampe; Guangye Han; Sheraz Gul; Dörte DiFiore; Despina Milathianaki; Alan R Fry; Alan Miahnahri; William E White; Donald W Schafer; M Marvin Seibert; Jason E Koglin; Dimosthenis Sokaras; Tsu-Chien Weng; Jonas Sellberg; Matthew J Latimer; Pieter Glatzel; Petrus H Zwart; Ralf W Grosse-Kunstleve; Michael J Bogan; Marc Messerschmidt; Garth J Williams; Sébastien Boutet; Johannes Messinger; Athina Zouni; Junko Yano; Uwe Bergmann; Vittal K Yachandra; Paul D Adams; Nicholas K Sauter
Journal:  Nat Methods       Date:  2014-03-16       Impact factor: 28.547

3.  Linking crystallographic model and data quality.

Authors:  P Andrew Karplus; Kay Diederichs
Journal:  Science       Date:  2012-05-25       Impact factor: 47.728

4.  Development of an X-ray pixel detector with multi-port charge-coupled device for X-ray free-electron laser experiments.

Authors:  Takashi Kameshima; Shun Ono; Togo Kudo; Kyosuke Ozaki; Yoichi Kirihara; Kazuo Kobayashi; Yuichi Inubushi; Makina Yabashi; Toshio Horigome; Andrew Holland; Karen Holland; David Burt; Hajime Murao; Takaki Hatsui
Journal:  Rev Sci Instrum       Date:  2014-03       Impact factor: 1.523

5.  Crystallographic data processing for free-electron laser sources.

Authors:  Thomas A White; Anton Barty; Francesco Stellato; James M Holton; Richard A Kirian; Nadia A Zatsepin; Henry N Chapman
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2013-06-15

6.  Crystal structure of rhodopsin bound to arrestin by femtosecond X-ray laser.

Authors:  Yanyong Kang; X Edward Zhou; Xiang Gao; Yuanzheng He; Wei Liu; Andrii Ishchenko; Anton Barty; Thomas A White; Oleksandr Yefanov; Gye Won Han; Qingping Xu; Parker W de Waal; Jiyuan Ke; M H Eileen Tan; Chenghai Zhang; Arne Moeller; Graham M West; Bruce D Pascal; Ned Van Eps; Lydia N Caro; Sergey A Vishnivetskiy; Regina J Lee; Kelly M Suino-Powell; Xin Gu; Kuntal Pal; Jinming Ma; Xiaoyong Zhi; Sébastien Boutet; Garth J Williams; Marc Messerschmidt; Cornelius Gati; Nadia A Zatsepin; Dingjie Wang; Daniel James; Shibom Basu; Shatabdi Roy-Chowdhury; Chelsie E Conrad; Jesse Coe; Haiguang Liu; Stella Lisova; Christopher Kupitz; Ingo Grotjohann; Raimund Fromme; Yi Jiang; Minjia Tan; Huaiyu Yang; Jun Li; Meitian Wang; Zhong Zheng; Dianfan Li; Nicole Howe; Yingming Zhao; Jörg Standfuss; Kay Diederichs; Yuhui Dong; Clinton S Potter; Bridget Carragher; Martin Caffrey; Hualiang Jiang; Henry N Chapman; John C H Spence; Petra Fromme; Uwe Weierstall; Oliver P Ernst; Vsevolod Katritch; Vsevolod V Gurevich; Patrick R Griffin; Wayne L Hubbell; Raymond C Stevens; Vadim Cherezov; Karsten Melcher; H Eric Xu
Journal:  Nature       Date:  2015-07-22       Impact factor: 49.962

7.  Serial crystallography on in vivo grown microcrystals using synchrotron radiation.

Authors:  Cornelius Gati; Gleb Bourenkov; Marco Klinge; Dirk Rehders; Francesco Stellato; Dominik Oberthür; Oleksandr Yefanov; Benjamin P Sommer; Stefan Mogk; Michael Duszenko; Christian Betzel; Thomas R Schneider; Henry N Chapman; Lars Redecke
Journal:  IUCrJ       Date:  2014-02-10       Impact factor: 4.769

8.  Room-temperature macromolecular serial crystallography using synchrotron radiation.

Authors:  Francesco Stellato; Dominik Oberthür; Mengning Liang; Richard Bean; Cornelius Gati; Oleksandr Yefanov; Anton Barty; Anja Burkhardt; Pontus Fischer; Lorenzo Galli; Richard A Kirian; Jan Meyer; Saravanan Panneerselvam; Chun Hong Yoon; Fedor Chervinskii; Emily Speller; Thomas A White; Christian Betzel; Alke Meents; Henry N Chapman
Journal:  IUCrJ       Date:  2014-05-30       Impact factor: 4.769

9.  Room temperature structures beyond 1.5 Å by serial femtosecond crystallography.

Authors:  Marius Schmidt; Kanupriya Pande; Shibom Basu; Jason Tenboer
Journal:  Struct Dyn       Date:  2015-05-07       Impact factor: 2.920

10.  Ternary structure reveals mechanism of a membrane diacylglycerol kinase.

Authors:  Dianfan Li; Phillip J Stansfeld; Mark S P Sansom; Aaron Keogh; Lutz Vogeley; Nicole Howe; Joseph A Lyons; David Aragao; Petra Fromme; Raimund Fromme; Shibom Basu; Ingo Grotjohann; Christopher Kupitz; Kimberley Rendek; Uwe Weierstall; Nadia A Zatsepin; Vadim Cherezov; Wei Liu; Sateesh Bandaru; Niall J English; Cornelius Gati; Anton Barty; Oleksandr Yefanov; Henry N Chapman; Kay Diederichs; Marc Messerschmidt; Sébastien Boutet; Garth J Williams; M Marvin Seibert; Martin Caffrey
Journal:  Nat Commun       Date:  2015-12-17       Impact factor: 14.919

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  30 in total

Review 1.  A Bright Future for Serial Femtosecond Crystallography with XFELs.

Authors:  Linda C Johansson; Benjamin Stauch; Andrii Ishchenko; Vadim Cherezov
Journal:  Trends Biochem Sci       Date:  2017-07-18       Impact factor: 13.807

Review 2.  Serial Femtosecond Crystallography of G Protein-Coupled Receptors.

Authors:  Benjamin Stauch; Vadim Cherezov
Journal:  Annu Rev Biophys       Date:  2018-03-15       Impact factor: 12.981

3.  Microcrystal preparation for serial femtosecond X-ray crystallography of bacterial copper amine oxidase.

Authors:  Takeshi Murakawa; Mamoru Suzuki; Toshi Arima; Michihiro Sugahara; Tomoyuki Tanaka; Rie Tanaka; So Iwata; Eriko Nango; Kensuke Tono; Hideyuki Hayashi; Kenji Fukui; Takato Yano; Katsuyuki Tanizawa; Toshihide Okajima
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2021-09-21       Impact factor: 1.072

4.  Protein structure determination by single-wavelength anomalous diffraction phasing of X-ray free-electron laser data.

Authors:  Karol Nass; Anton Meinhart; Thomas R M Barends; Lutz Foucar; Alexander Gorel; Andrew Aquila; Sabine Botha; R Bruce Doak; Jason Koglin; Mengning Liang; Robert L Shoeman; Garth Williams; Sebastien Boutet; Ilme Schlichting
Journal:  IUCrJ       Date:  2016-03-09       Impact factor: 4.769

5.  Macromolecular diffractive imaging using imperfect crystals.

Authors:  Kartik Ayyer; Oleksandr M Yefanov; Dominik Oberthür; Shatabdi Roy-Chowdhury; Lorenzo Galli; Valerio Mariani; Shibom Basu; Jesse Coe; Chelsie E Conrad; Raimund Fromme; Alexander Schaffer; Katerina Dörner; Daniel James; Christopher Kupitz; Markus Metz; Garrett Nelson; Paulraj Lourdu Xavier; Kenneth R Beyerlein; Marius Schmidt; Iosifina Sarrou; John C H Spence; Uwe Weierstall; Thomas A White; Jay-How Yang; Yun Zhao; Mengning Liang; Andrew Aquila; Mark S Hunter; Joseph S Robinson; Jason E Koglin; Sébastien Boutet; Petra Fromme; Anton Barty; Henry N Chapman
Journal:  Nature       Date:  2016-02-11       Impact factor: 49.962

6.  Data processing pipeline for serial femtosecond crystallography at SACLA.

Authors:  Takanori Nakane; Yasumasa Joti; Kensuke Tono; Makina Yabashi; Eriko Nango; So Iwata; Ryuichiro Ishitani; Osamu Nureki
Journal:  J Appl Crystallogr       Date:  2016-04-18       Impact factor: 3.304

7.  Serial millisecond crystallography for routine room-temperature structure determination at synchrotrons.

Authors:  Tobias Weinert; Natacha Olieric; Robert Cheng; Steffen Brünle; Daniel James; Dmitry Ozerov; Dardan Gashi; Laura Vera; May Marsh; Kathrin Jaeger; Florian Dworkowski; Ezequiel Panepucci; Shibom Basu; Petr Skopintsev; Andrew S Doré; Tian Geng; Robert M Cooke; Mengning Liang; Andrea E Prota; Valerie Panneels; Przemyslaw Nogly; Ulrich Ermler; Gebhard Schertler; Michael Hennig; Michel O Steinmetz; Meitian Wang; Jörg Standfuss
Journal:  Nat Commun       Date:  2017-09-14       Impact factor: 14.919

8.  Fixed-target serial femtosecond crystallography using in cellulo grown microcrystals.

Authors:  J Mia Lahey-Rudolph; Robert Schönherr; Miriam Barthelmess; Pontus Fischer; Carolin Seuring; Armin Wagner; Alke Meents; Lars Redecke
Journal:  IUCrJ       Date:  2021-06-18       Impact factor: 4.769

9.  Recent developments in CrystFEL.

Authors:  Thomas A White; Valerio Mariani; Wolfgang Brehm; Oleksandr Yefanov; Anton Barty; Kenneth R Beyerlein; Fedor Chervinskii; Lorenzo Galli; Cornelius Gati; Takanori Nakane; Alexandra Tolstikova; Keitaro Yamashita; Chun Hong Yoon; Kay Diederichs; Henry N Chapman
Journal:  J Appl Crystallogr       Date:  2016-03-29       Impact factor: 3.304

10.  Native phasing of x-ray free-electron laser data for a G protein-coupled receptor.

Authors:  Alexander Batyuk; Lorenzo Galli; Andrii Ishchenko; Gye Won Han; Cornelius Gati; Petr A Popov; Ming-Yue Lee; Benjamin Stauch; Thomas A White; Anton Barty; Andrew Aquila; Mark S Hunter; Mengning Liang; Sébastien Boutet; Mengchen Pu; Zhi-Jie Liu; Garrett Nelson; Daniel James; Chufeng Li; Yun Zhao; John C H Spence; Wei Liu; Petra Fromme; Vsevolod Katritch; Uwe Weierstall; Raymond C Stevens; Vadim Cherezov
Journal:  Sci Adv       Date:  2016-09-23       Impact factor: 14.136

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