A data set from flash X-ray imaging of carboxysomes

Max F. Hantke, Dirk Hasse, Tomas Ekeberg, Katja John, Martin Svenda, Duane Loh, Andrew V. Martin, Nicusor Timneanu, Daniel S D Larsson, Gijs Van Der Schot, Gunilla H. Carlsson, Margareta Ingelman, Jakob Andreasson, Daniel Westphal, Bianca Iwan, Charlotte Uetrecht, Johan Bielecki, Mengning Liang, Francesco Stellato, Daniel P. DePonte & 20 others Sadia Bari, Robert Hartmann, Nils Kimmel, Richard Kirian, M. Marvin Seibert, Kerstin Mühlig, Sebastian Schorb, Ken Ferguson, Christoph Bostedt, Sebastian Carron, John D. Bozek, Daniel Rolles, Artem Rudenko, Lutz Foucar, Sascha W. Epp, Henry N. Chapman, Anton Barty, Inger Andersson, Janos Hajdu, Filipe R N C Maia

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Ultra-intense femtosecond X-ray pulses from X-ray lasers permit structural studies on single particles and biomolecules without crystals. We present a large data set on inherently heterogeneous, polyhedral carboxysome particles. Carboxysomes are cell organelles that vary in size and facilitate up to 40% of Earth's carbon fixation by cyanobacteria and certain proteobacteria. Variation in size hinders crystallization. Carboxysomes appear icosahedral in the electron microscope. A protein shell encapsulates a large number of Rubisco molecules in paracrystalline arrays inside the organelle. We used carboxysomes with a mean diameter of 115±26 nm from Halothiobacillus neapolitanus. A new aerosol sample-injector allowed us to record 70,000 low-noise diffraction patterns in 12 min. Every diffraction pattern is a unique structure measurement and high-throughput imaging allows sampling the space of structural variability. The different structures can be separated and phased directly from the diffraction data and open a way for accurate, high-throughput studies on structures and structural heterogeneity in biology and elsewhere.

Original languageEnglish (US)
Article number160061
JournalScientific data
Volume3
DOIs
StatePublished - Aug 1 2016
Externally publishedYes

Fingerprint

X-ray Imaging
Flash
Diffraction patterns
Diffraction
Throughput
X ray lasers
Imaging techniques
X rays
High Throughput
Biomolecules
Aerosols
X-ray Laser
Cyanobacteria
Laser pulses
Injector
Electron microscopes
Femtosecond
Crystallization
Earth (planet)
Fixation

ASJC Scopus subject areas

  • Education
  • Library and Information Sciences
  • Computer Science Applications
  • Information Systems
  • Statistics, Probability and Uncertainty
  • Statistics and Probability

Cite this

Hantke, M. F., Hasse, D., Ekeberg, T., John, K., Svenda, M., Loh, D., ... Maia, F. R. N. C. (2016). A data set from flash X-ray imaging of carboxysomes. Scientific data, 3, [160061]. https://doi.org/10.1038/sdata.2016.61

A data set from flash X-ray imaging of carboxysomes. / Hantke, Max F.; Hasse, Dirk; Ekeberg, Tomas; John, Katja; Svenda, Martin; Loh, Duane; Martin, Andrew V.; Timneanu, Nicusor; Larsson, Daniel S D; Van Der Schot, Gijs; Carlsson, Gunilla H.; Ingelman, Margareta; Andreasson, Jakob; Westphal, Daniel; Iwan, Bianca; Uetrecht, Charlotte; Bielecki, Johan; Liang, Mengning; Stellato, Francesco; DePonte, Daniel P.; Bari, Sadia; Hartmann, Robert; Kimmel, Nils; Kirian, Richard; Seibert, M. Marvin; Mühlig, Kerstin; Schorb, Sebastian; Ferguson, Ken; Bostedt, Christoph; Carron, Sebastian; Bozek, John D.; Rolles, Daniel; Rudenko, Artem; Foucar, Lutz; Epp, Sascha W.; Chapman, Henry N.; Barty, Anton; Andersson, Inger; Hajdu, Janos; Maia, Filipe R N C.

In: Scientific data, Vol. 3, 160061, 01.08.2016.

Research output: Contribution to journalArticle

Hantke, MF, Hasse, D, Ekeberg, T, John, K, Svenda, M, Loh, D, Martin, AV, Timneanu, N, Larsson, DSD, Van Der Schot, G, Carlsson, GH, Ingelman, M, Andreasson, J, Westphal, D, Iwan, B, Uetrecht, C, Bielecki, J, Liang, M, Stellato, F, DePonte, DP, Bari, S, Hartmann, R, Kimmel, N, Kirian, R, Seibert, MM, Mühlig, K, Schorb, S, Ferguson, K, Bostedt, C, Carron, S, Bozek, JD, Rolles, D, Rudenko, A, Foucar, L, Epp, SW, Chapman, HN, Barty, A, Andersson, I, Hajdu, J & Maia, FRNC 2016, 'A data set from flash X-ray imaging of carboxysomes', Scientific data, vol. 3, 160061. https://doi.org/10.1038/sdata.2016.61
Hantke MF, Hasse D, Ekeberg T, John K, Svenda M, Loh D et al. A data set from flash X-ray imaging of carboxysomes. Scientific data. 2016 Aug 1;3. 160061. https://doi.org/10.1038/sdata.2016.61
Hantke, Max F. ; Hasse, Dirk ; Ekeberg, Tomas ; John, Katja ; Svenda, Martin ; Loh, Duane ; Martin, Andrew V. ; Timneanu, Nicusor ; Larsson, Daniel S D ; Van Der Schot, Gijs ; Carlsson, Gunilla H. ; Ingelman, Margareta ; Andreasson, Jakob ; Westphal, Daniel ; Iwan, Bianca ; Uetrecht, Charlotte ; Bielecki, Johan ; Liang, Mengning ; Stellato, Francesco ; DePonte, Daniel P. ; Bari, Sadia ; Hartmann, Robert ; Kimmel, Nils ; Kirian, Richard ; Seibert, M. Marvin ; Mühlig, Kerstin ; Schorb, Sebastian ; Ferguson, Ken ; Bostedt, Christoph ; Carron, Sebastian ; Bozek, John D. ; Rolles, Daniel ; Rudenko, Artem ; Foucar, Lutz ; Epp, Sascha W. ; Chapman, Henry N. ; Barty, Anton ; Andersson, Inger ; Hajdu, Janos ; Maia, Filipe R N C. / A data set from flash X-ray imaging of carboxysomes. In: Scientific data. 2016 ; Vol. 3.
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AU - Hasse, Dirk

AU - Ekeberg, Tomas

AU - John, Katja

AU - Svenda, Martin

AU - Loh, Duane

AU - Martin, Andrew V.

AU - Timneanu, Nicusor

AU - Larsson, Daniel S D

AU - Van Der Schot, Gijs

AU - Carlsson, Gunilla H.

AU - Ingelman, Margareta

AU - Andreasson, Jakob

AU - Westphal, Daniel

AU - Iwan, Bianca

AU - Uetrecht, Charlotte

AU - Bielecki, Johan

AU - Liang, Mengning

AU - Stellato, Francesco

AU - DePonte, Daniel P.

AU - Bari, Sadia

AU - Hartmann, Robert

AU - Kimmel, Nils

AU - Kirian, Richard

AU - Seibert, M. Marvin

AU - Mühlig, Kerstin

AU - Schorb, Sebastian

AU - Ferguson, Ken

AU - Bostedt, Christoph

AU - Carron, Sebastian

AU - Bozek, John D.

AU - Rolles, Daniel

AU - Rudenko, Artem

AU - Foucar, Lutz

AU - Epp, Sascha W.

AU - Chapman, Henry N.

AU - Barty, Anton

AU - Andersson, Inger

AU - Hajdu, Janos

AU - Maia, Filipe R N C

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N2 - Ultra-intense femtosecond X-ray pulses from X-ray lasers permit structural studies on single particles and biomolecules without crystals. We present a large data set on inherently heterogeneous, polyhedral carboxysome particles. Carboxysomes are cell organelles that vary in size and facilitate up to 40% of Earth's carbon fixation by cyanobacteria and certain proteobacteria. Variation in size hinders crystallization. Carboxysomes appear icosahedral in the electron microscope. A protein shell encapsulates a large number of Rubisco molecules in paracrystalline arrays inside the organelle. We used carboxysomes with a mean diameter of 115±26 nm from Halothiobacillus neapolitanus. A new aerosol sample-injector allowed us to record 70,000 low-noise diffraction patterns in 12 min. Every diffraction pattern is a unique structure measurement and high-throughput imaging allows sampling the space of structural variability. The different structures can be separated and phased directly from the diffraction data and open a way for accurate, high-throughput studies on structures and structural heterogeneity in biology and elsewhere.

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