|
Haoyuan
Li
,
Reza
Nazari
,
Brian
Abbey
,
Roberto
Alvarez
,
Andrew
Aquila
,
Kartik
Ayyer
,
Anton
Barty
,
Peter
Berntsen
,
Johan
Bielecki
,
Alberto
Pietrini
,
Maximilian
Bucher
,
Gabriella
Carini
,
Henry N.
Chapman
,
Alice
Contreras
,
Benedikt J.
Daurer
,
Hasan
Demirci
,
Leonie
Flűckiger
,
Matthias
Frank
,
Janos
Hajdu
,
Max F.
Hantke
,
Brenda G.
Hogue
,
Ahmad
Hosseinizadeh
,
Mark S.
Hunter
,
H. Olof
Jönsson
,
Richard A.
Kirian
,
Ruslan P.
Kurta
,
Duane
Loh
,
Filipe R. N. C.
Maia
,
Adrian P.
Mancuso
,
Andrew J.
Morgan
,
Matthew
Mcfadden
,
Kerstin
Muehlig
,
Anna
Munke
,
Hemanth Kumar Narayana
Reddy
,
Carl
Nettelblad
,
Abbas
Ourmazd
,
Max
Rose
,
Peter
Schwander
,
M.
Marvin Seibert
,
Jonas A.
Sellberg
,
Raymond G.
Sierra
,
Zhibin
Sun
,
Martin
Svenda
,
Ivan A.
Vartanyants
,
Peter
Walter
,
Daniel
Westphal
,
Garth
Williams
,
P. Lourdu
Xavier
,
Chun Hong
Yoon
,
Sahba
Zaare
Open Access
Abstract: Single Particle Imaging (SPI) with intense coherent X-ray pulses from X-ray free-electron lasers (XFELs) has the potential to produce molecular structures without the need for crystallization or freezing. Here we present a dataset of 285,944 diffraction patterns from aerosolized Coliphage PR772 virus particles injected into the femtosecond X-ray pulses of the Linac Coherent Light Source (LCLS). Additional exposures with background information are also deposited. The diffraction data were collected at the Atomic, Molecular and Optical Science Instrument (AMO) of the LCLS in 4 experimental beam times during a period of four years. The photon energy was either 1.2 or 1.7 keV and the pulse energy was between 2 and 4 mJ in a focal spot of about 1.3 μm x 1.7 μm full width at half maximum (FWHM). The X-ray laser pulses captured the particles in random orientations. The data offer insight into aerosolised virus particles in the gas phase, contain information relevant to improving experimental parameters, and provide a basis for developing algorithms for image analysis and reconstruction.
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Nov 2020
|
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Austin
Echelmeier
,
Jorvani
Cruz Villarreal
,
Marc
Messerschmidt
,
Daihyun
Kim
,
Jesse D.
Coe
,
Darren
Thifault
,
Sabine
Botha
,
Ana
Egatz-Gomez
,
Sahir
Gandhi
,
Gerrit
Brehm
,
Chelsie E.
Conrad
,
Debra T.
Hansen
,
Caleb
Madsen
,
Saša
Bajt
,
J. Domingo
Meza-Aguilar
,
Dominik
Oberthuer
,
Max O.
Wiedorn
,
Holger
Fleckenstein
,
Derek
Mendez
,
Juraj
Knoška
,
Jose M.
Martin-Garcia
,
Hao
Hu
,
Stella
Lisova
,
Aschkai
Allahgoli
,
Yaroslav
Gevorkov
,
Kartik
Ayyer
,
Steve
Aplin
,
Helen M.
Ginn
,
Heinz
Graafsma
,
Andrew J.
Morgan
,
Dominic
Greiffenberg
,
Alexander
Klujev
,
Torsten
Laurus
,
Jennifer
Poehlsen
,
Ulrich
Trunk
,
Davide
Mezza
,
Bernd
Schmitt
,
Manuela
Kuhn
,
Raimund
Fromme
,
Jolanta
Sztuk-Dambietz
,
Natascha
Raab
,
Steffen
Hauf
,
Alessandro
Silenzi
,
Thomas
Michelat
,
Chen
Xu
,
Cyril
Danilevski
,
Andrea
Parenti
,
Leonce
Mekinda
,
Britta
Weinhausen
,
Grant
Mills
,
Patrik
Vagovic
,
Yoonhee
Kim
,
Henry
Kirkwood
,
Richard
Bean
,
Johan
Bielecki
,
Stephan
Stern
,
Klaus
Giewekemeyer
,
Adam
Round
,
Joachim
Schulz
,
Katerina
Dörner
,
Thomas D.
Grant
,
Valerio
Mariani
,
Anton
Barty
,
Adrian P.
Mancuso
,
Uwe
Weierstall
,
John C. H.
Spence
,
Henry N.
Chapman
,
Nadia
Zatsepin
,
Petra
Fromme
,
Richard A.
Kirian
,
Alexandra
Ros
Open Access
Abstract: Serial femtosecond crystallography (SFX) with X-ray free electron lasers (XFELs) allows structure determination of membrane proteins and time-resolved crystallography. Common liquid sample delivery continuously jets the protein crystal suspension into the path of the XFEL, wasting a vast amount of sample due to the pulsed nature of all current XFEL sources. The European XFEL (EuXFEL) delivers femtosecond (fs) X-ray pulses in trains spaced 100 ms apart whereas pulses within trains are currently separated by 889 ns. Therefore, continuous sample delivery via fast jets wastes >99% of sample. Here, we introduce a microfluidic device delivering crystal laden droplets segmented with an immiscible oil reducing sample waste and demonstrate droplet injection at the EuXFEL compatible with high pressure liquid delivery of an SFX experiment. While achieving ~60% reduction in sample waste, we determine the structure of the enzyme 3-deoxy-D-manno-octulosonate-8-phosphate synthase from microcrystals delivered in droplets revealing distinct structural features not previously reported.
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Sep 2020
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I03-Macromolecular Crystallography
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Max O.
Wiedorn
,
Dominik
Oberthuer
,
Richard
Bean
,
Robin
Schubert
,
Nadine
Werner
,
Brian
Abbey
,
Martin
Aepfelbacher
,
Luigi
Adriano
,
Aschkan
Allahgholi
,
Nasser
Al-Qudami
,
Jakob
Andreasson
,
Steve
Aplin
,
Salah
Awel
,
Kartik
Ayyer
,
Saša
Bajt
,
Imrich
Barák
,
Sadia
Bari
,
Johan
Bielecki
,
Sabine
Botha
,
Djelloul
Boukhelef
,
Wolfgang
Brehm
,
Sandor
Brockhauser
,
Igor
Cheviakov
,
Matthew A.
Coleman
,
Francisco
Cruz-Mazo
,
Cyril
Danilevski
,
Connie
Darmanin
,
R. Bruce
Doak
,
Martin
Domaracky
,
Katerina
Dörner
,
Yang
Du
,
Hans
Fangohr
,
Holger
Fleckenstein
,
Matthias
Frank
,
Petra
Fromme
,
Alfonso M.
Gañán-Calvo
,
Yaroslav
Gevorkov
,
Klaus
Giewekemeyer
,
Helen Mary
Ginn
,
Heinz
Graafsma
,
Rita
Graceffa
,
Dominic
Greiffenberg
,
Lars
Gumprecht
,
Peter
Göttlicher
,
Janos
Hajdu
,
Steffen
Hauf
,
Michael
Heymann
,
Susannah
Holmes
,
Daniel A.
Horke
,
Mark S.
Hunter
,
Siegfried
Imlau
,
Alexander
Kaukher
,
Yoonhee
Kim
,
Alexander
Klyuev
,
Juraj
Knoška
,
Bostjan
Kobe
,
Manuela
Kuhn
,
Christopher
Kupitz
,
Jochen
Küpper
,
Janine Mia
Lahey-Rudolph
,
Torsten
Laurus
,
Karoline
Le Cong
,
Romain
Letrun
,
P. Lourdu
Xavier
,
Luis
Maia
,
Filipe R. N. C.
Maia
,
Valerio
Mariani
,
Marc
Messerschmidt
,
Markus
Metz
,
Davide
Mezza
,
Thomas
Michelat
,
Grant
Mills
,
Diana C. F.
Monteiro
,
Andrew
Morgan
,
Kerstin
Mühlig
,
Anna
Munke
,
Astrid
Münnich
,
Julia
Nette
,
Keith A.
Nugent
,
Theresa
Nuguid
,
Allen M.
Orville
,
Suraj
Pandey
,
Gisel
Pena
,
Pablo
Villanueva-Perez
,
Jennifer
Poehlsen
,
Gianpietro
Previtali
,
Lars
Redecke
,
Winnie Maria
Riekehr
,
Holger
Rohde
,
Adam
Round
,
Tatiana
Safenreiter
,
Iosifina
Sarrou
,
Tokushi
Sato
,
Marius
Schmidt
,
Bernd
Schmitt
,
Robert
Schönherr
,
Joachim
Schulz
,
Jonas A.
Sellberg
,
M. Marvin
Seibert
,
Carolin
Seuring
,
Megan L.
Shelby
,
Robert L.
Shoeman
,
Marcin
Sikorski
,
Alessandro
Silenzi
,
Claudiu A.
Stan
,
Xintian
Shi
,
Stephan
Stern
,
Jola
Sztuk-Dambietz
,
Janusz
Szuba
,
Aleksandra
Tolstikova
,
Martin
Trebbin
,
Ulrich
Trunk
,
Patrik
Vagovic
,
Thomas
Ve
,
Britta
Weinhausen
,
Thomas A.
White
,
Krzysztof
Wrona
,
Chen
Xu
,
Oleksandr
Yefanov
,
Nadia
Zatsepin
,
Jiaguo
Zhang
,
Markus
Perbandt
,
Adrian P.
Mancuso
,
Christian
Betzel
,
Henry
Chapman
,
Anton
Barty
Open Access
Abstract: The new European X-ray Free-Electron Laser is the first X-ray free-electron laser capable of delivering X-ray pulses with a megahertz inter-pulse spacing, more than four orders of magnitude higher than previously possible. However, to date, it has been unclear whether it would indeed be possible to measure high-quality diffraction data at megahertz pulse repetition rates. Here, we show that high-quality structures can indeed be obtained using currently available operating conditions at the European XFEL. We present two complete data sets, one from the well-known model system lysozyme and the other from a so far unknown complex of a β-lactamase from K. pneumoniae involved in antibiotic resistance. This result opens up megahertz serial femtosecond crystallography (SFX) as a tool for reliable structure determination, substrate screening and the efficient measurement of the evolution and dynamics of molecular structures using megahertz repetition rate pulses available at this new class of X-ray laser source.
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Oct 2018
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Carolin
Seuring
,
Kartik
Ayyer
,
Eleftheria
Filippaki
,
Miriam
Barthelmess
,
Jean-Nicolas
Longchamp
,
Philippe
Ringler
,
Tommaso
Pardini
,
David H.
Wojtas
,
Matthew A.
Coleman
,
Katerina
Dörner
,
Silje
Fuglerud
,
Greger
Hammarin
,
Birgit
Habenstein
,
Annette E.
Langkilde
,
Antoine
Loquet
,
Alke
Meents
,
Roland
Riek
,
Henning
Stahlberg
,
Sébastien
Boutet
,
Mark S.
Hunter
,
Jason
Koglin
,
Mengning
Liang
,
Helen M.
Ginn
,
Rick P.
Millane
,
Matthias
Frank
,
Anton
Barty
,
Henry N.
Chapman
Open Access
Abstract: Here we present a new approach to diffraction imaging of amyloid fibrils, combining a free-standing graphene support and single nanofocused X-ray pulses of femtosecond duration from an X-ray free-electron laser. Due to the very low background scattering from the graphene support and mutual alignment of filaments, diffraction from tobacco mosaic virus (TMV) filaments and amyloid protofibrils is obtained to 2.7 Å and 2.4 Å resolution in single diffraction patterns, respectively. Some TMV diffraction patterns exhibit asymmetry that indicates the presence of a limited number of axial rotations in the XFEL focus. Signal-to-noise levels from individual diffraction patterns are enhanced using computational alignment and merging, giving patterns that are superior to those obtainable from synchrotron radiation sources. We anticipate that our approach will be a starting point for further investigations into unsolved structures of filaments and other weakly scattering objects.
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May 2018
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I24-Microfocus Macromolecular Crystallography
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Dianfan
Li
,
Phillip J.
Stansfeld
,
Mark S. P.
Sansom
,
Aaron
Keogh
,
Lutz
Vogeley
,
Nicole
Howe
,
Joseph
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
Open Access
Abstract: Diacylglycerol kinase catalyses the ATP-dependent conversion of diacylglycerol to phosphatidic acid in the plasma membrane of Escherichia coli. The small size of this integral membrane trimer, which has 121 residues per subunit, means that available protein must be used economically to craft three catalytic and substrate-binding sites centred about the membrane/cytosol interface. How nature has accomplished this extraordinary feat is revealed here in a crystal structure of the kinase captured as a ternary complex with bound lipid substrate and an ATP analogue. Residues, identified as essential for activity by mutagenesis, decorate the active site and are rationalized by the ternary structure. The γ-phosphate of the ATP analogue is positioned for direct transfer to the primary hydroxyl of the lipid whose acyl chain is in the membrane. A catalytic mechanism for this unique enzyme is proposed. The active site architecture shows clear evidence of having arisen by convergent evolution.
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Dec 2015
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NONE-No attached Diamond beamline
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Przemyslaw
Nogly
,
Daniel
James
,
Dingjie
Wang
,
Thomas A.
White
,
Nadia
Zatsepin
,
Anastasya
Shilova
,
Garrett
Nelson
,
Haiguang
Liu
,
Linda
Johansson
,
Michael
Heymann
,
Kathrin
Jaeger
,
Markus
Metz
,
Cecilia
Wickstrand
,
Wenting
Wu
,
Petra
Båth
,
Peter
Berntsen
,
Dominik
Oberthuer
,
Valerie
Panneels
,
Vadim
Cherezov
,
Isabel
Moraes
,
Henry
Chapman
,
Gebhard
Schertler
,
Richard
Neutze
,
John
Spence
,
Manfred
Burghammer
,
Joerg
Standfuss
,
Uwe
Weierstall
Open Access
Abstract: Lipidic cubic phases (LCPs) have emerged as successful matrixes for the crystallization of membrane proteins. Moreover, the viscous LCP also provides a highly effective delivery medium for serial femtosecond crystallography (SFX) at X-ray free-electron lasers (XFELs). Here, the adaptation of this technology to perform serial millisecond crystallography (SMX) at more widely available synchrotron microfocus beamlines is described. Compared with conventional microcrystallography, LCP-SMX eliminates the need for difficult handling of individual crystals and allows for data collection at room temperature. The technology is demonstrated by solving a structure of the light-driven proton-pump bacteriorhodopsin (bR) at a resolution of 2.4 Å. The room-temperature structure of bR is very similar to previous cryogenic structures but shows small yet distinct differences in the retinal ligand and proton-transfer pathway.
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Mar 2015
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