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BioXFEL Online Seminar - Abbas Ourmazd
Events 3 Aug 2016
Aug 03 2016
The BioXFEL August Seminar will be given by Dr. Abbas Ourmazd of the University of Wisconsin Milwaukee. Machine learning is guided by the intrinsic properties of the data, rather than user-directed notions.… Examples will include molecular movies of biological nanomachines in action, femtosecond bond-breaking in molecules, and…
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Members
Sarah Perry’s research program is focused on utilizing advanced microfluidic technologies self-assembly, molecular design, and microfluidic technologies to generate biomimetic microenvironments to study and enable the implementation of biomolecules and biological systems to address real-world challenges.… Together, these…
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Temperature-Jump Solution X-ray Scattering Reveals Distinct Motions in a Dynamic Enzyme:
BioXFEL Publications 22 Nov 2018 Contributor(s): Michael Thompson, James Fraser
http://dx.doi.org/10.1101/476432 Correlated motions of proteins and their bound solvent molecules are critical to function, but these features are difficult to resolve using traditional structure determination techniques.… Temperature-jumps (T-jumps), through thermal excitation of the solvent, have been implemented to study…
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BioXFEL Protein Production and Purification Workshop at UPR-RP
Events 12 Oct 2017
Oct 12 2017
BioXFEL Protein Production and Purification Workshop As you may have guessed, this Workshop has been cancelled. It seems inappropriate to offer this at a time when Puerto Rico needs so much more than a protein workshop.… In the meantime, please stay safe and know that we are thinking of you.… If you would…
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Education 30 Sep 2016
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Dynamics and Kinetics in Structural Biology
News 21 Nov 2023
Understand the latest experimental tools in structured biology with this pioneering work by Keith Moffat and Eaton E.… Structural biology seeks to understand the chemical mechanisms and functions of biological molecules based on their atomic structures.… Dynamics and Kinetics in Structural Biology: Unravelling…
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Members
Dr. Matthias Frank is the group leader of the Advanced Diagnostics and Instrumentation Group in the Physics Division of the Physical & Life Sciences Directorate at Lawrence Livermore National Laboratory (LLNL).… He is also working on advanced analytical techniques for the analysis of single cells, aerosol particles, human…
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Biography 20 Sep 2013
Russell FungUniversity of Wisconsin-MilwaukeeDepartment of Physics1900 East Kenwood BoulevardMilwaukee, WI 53211russellfung@me.… Russell Fung received his Ph.D. in Surface Physics (2005) from University of Wisconsin Milwaukee (UWM), and then worked there as a postdoctoral research associate in various groups from 2006 until 2009.…
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Visualizing a protein quake with time-resolved X-ray scattering at a free-electron laser
BioXFEL Publications 10 Aug 2014 Contributor(s): Matthias Frank, Mark S. Hunter, Richard Kirian, Christopher Kupitz, Marc Messerschmidt, Uwe Weierstall, Nadia Zatsepin, John Spence, Petra Fromme, Henry Chapman
journal-articleDavid Arnlund and Linda C Johansson and Cecilia Wickstrand and Anton Barty and Garth J Williams and Erik Malmerberg and Jan Davidsson and Despina Milathianaki and Daniel P DePonte and Robert L Shoeman and Dingjie Wang and Daniel James and Gergely Katona and Sebastian Westenhoff and Thomas A White and Andrew Aquila and Sadia Bari and…
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News 5 Jul 2017
Riboswitches are structurally dynamic RNA molecules, undergoing changes in shape as they perform their regulatory functions.… Thus far, structures have been obtained for the aptamer domains, but the motions caused by ligand binding have been tricky to observe by crystallography: crystals typically freeze molecules in one shape,…
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Few-fs resolution of a photoactive protein traversing a conical intersection
News 4 Nov 2021
The structural dynamics of a molecule are determined by the underlying potential energy landscape.… Posited almost a century ago, conical intersections remain the subject of intense scientific interest. In biology, they have a pivotal role in vision, photosynthesis and DNA stability6. Accurate theoretical methods for examining…
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SwissFEL Beamtime Applications DUE
Events 15 Sep 2019
Sep 15 2019
SwissFEL Calls for Proposals The PSI User Office invites user proposals for the first user run at SwissFEL. SwissFEL is being continuously developed but the proposals must be based on the parameters outlined below on this page … After the submission deadline the proposals are evaluated in terms of safety and technical…
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Arizona State University Biophysics Seminar - Alexandra Ros
Events 24 Sep 2014
Sep 24 2014
Microfluidic Platforms for Bimolecular and Nanocrystal Separation Abstract: Analytical and bioanalytical applications of microfluidic devices or so called Lab-on-a-Chip Systems have been an extensive field of research over the past two decades.… In contrast to this approach of downscaling existing analytical techniques, research…
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The 1st SACLA Workshop on Femtosecond Crystallography
Events 26 Mar 2015
Mar 26 2015
BioXFEL Presenters include: Henry Chapman (DESY), Uwe Weierstall (ASU), Vadim Cherezov (Scripps), and Petra Fromme (ASU) … The 1st SACLA Workshop on Femtosecond Crystallography Date: March 26-27, 2015 Place: Conference room on 2F at SACLA Registration: Registration is free. Please send your name, affiliation, occupation, email…
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News 25 Oct 2022
Nicole Terranova has a career background in secondary education. She taught biology in California for 17 years, assisted in creating her school district’s Next Generation Science Standards curriculum, developed social-emotional course content and student leadership curriculum content and activities while heading school events and student…
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XFEL Pulses Demonstrate How Plants Perceive Light
News 7 Apr 2020
A team of scientists from Sweden, Finland, Japan and the United States led by University of Gothenburg researcher Sebastian Westenhoff and BioXFEL member Marius Schmidt from the University of Wisconsin-Milwaukee have shown, for the first time with time-resolved X-ray structures, how photoreceptors in plants respond to light.……
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American Crystallography Association Conference 2022
Events 29 Jul 2022
Jul 29 2022
The American Crystallographic Association is returning to an in-person gathering for the 72nd annual meeting. Scientists interested in biological, chemical, and material structures will travel to the heart of Portland, Oregon, July 29 - August 3, 2022. In an effort to remain flexible in this dynamic time, the ACA plans to offer a selection of the…
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Serial time-resolved crystallography of photosystem II using a femtosecond X-ray laser
BioXFEL Publications 8 Jul 2014 Contributor(s): Christopher Kupitz, Shibom Basu, Nadia Zatsepin, Mark S. Hunter, Jay-How Yang, haiguang liu, Richard Kirian, Chelsie E Conrad, Stefan Hau-Riege, Marc Messerschmidt, Alexandra Ros, Shatabdi Roy-Chowdhury, Uwe Weierstall, Matthias Frank, Henry Chapman, John Spence, Petra Fromme
http://dx.doi.org/10.1038/nature13453Christopher Kupitz and Shibom Basu and Ingo Grotjohann and Raimund Fromme and Nadia A. Zatsepin and Kimberly N. Rendek and Mark S.… Shoeman and Thomas A. White and Dingjie Wang and Daniel James and Jay-How Yang and Danielle E. Cobb and Brenda Reeder and Raymond G.… Aquila and…
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European XFEL Call for Proposals Dec. 11th
News 1 Nov 2019
The European X-Ray Free-Electron Laser Facility (European XFEL, https://www.xfel.eu) encourages the scientific community worldwide to submit proposals for User Experiments via the User Portal to the European XFEL (UPEX) until Wednesday, 11 December 2019 16:00 (local Hamburg/Schenefeld time - CE … Call for Proposals User…
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LCLS Users' Meeting 2016 - BioXFEL Event
Events 8 Oct 2016
Oct 08 2016
BioXFEL is sponsoring an event following the LCLS Users' Meeting on Saturday, October 8, 2016. This is a half-day session open to all users' meeting graduate students, postdocs, and young scientists.… The session will include a Scientific Career Discussion panel and a BioXFEL Education Program Renewal Planning…
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BioXFEL Publications 20 Dec 2021 Contributor(s): Sabine Botha, Gihan Kaushylal Ketawala, Brandon Hayes, Christopher Kupitz, Hasan Demirci
http://dx.doi.org/10.3390/cryst11121579 Since early 2020, COVID-19 has grown to affect the lives of billions globally. A worldwide investigation has been ongoing for characterizing the virus and also for finding an effective drug and developing vaccines.… Here we demonstrated the possibility of screening a variety of drugs…
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New Scientific Capabilities at European XFEL
Events 25 Mar 2019
Mar 25 2019
At European XFEL two empty tunnels are currently available, which are planned to be upgraded in the mid-term to two new FEL beamlines (SASE4 and SASE5).… The workshop "New Scientific Capabilities at European XFEL" will broadly address possible scientific topics related to the SASE4 and SASE5 upgrades.… The 3 day…
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Biography 21 May 2013
Lois PollackCornell University School of Applied and Engineering Physics Clark Hall 254 Ithaca, NY 14853 lp26@cornell.edu(607) 255-8695 Lois Pollack's research program has two distinct themes. The first theme is instrumentation: the development of experimental tools that enable novel, time-resolved studies of proteins, DNA or…
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Publications 10 Feb 2014 Contributor(s): Henry Chapman
The first hard X-ray laser, the Linac Coherent Light Source (LCLS), produces 120 shots per second. Particles injected into the X-ray beam are hit randomly and in unknown orientations by the extremely intense X-ray pulses, where the femtosecond-duration X-ray pulses diffract from the sample before the particle structure is significantly changed even…
https://www.bioxfel.org/resources/Automated-identification-and-classification-of
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Visualizing a protein quake with time-resolved X-ray scattering at a free-electron laser
Teaching Materials 13 Oct 2015
We describe a method to measure ultrafast protein structural changes using time-resolved wide-angle X-ray scattering at an X-ray free-electron laser.… This provides direct structural evidence for a 'protein quake': the hypothesis that proteins rapidly dissipate energy through quake-like structural motions.……
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Members
With over 20 years of experience in the field of membrane protein X-ray crystallography, Dr. Fromme's expertise lies in fs crystallography and developmental methodology for the structural determination of membrane proteins.… Dr. Fromme's lab was the first to crystallize and unravel structural questions related to Photosystem I and…
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BioXFEL Publications 30 Sep 2015 Contributor(s): Rahel Woldeyes, Michael Thompson, James Holton, James Fraser
Determining the interconverting conformations of dynamic proteins in atomic detail is a major challenge for structural biology.… Here we compare the conformational ensembles of CypA by multitemperature synchrotron crystallography and fixed-target X-ray free-electron laser (XFEL) crystallography. The diffraction-before-destruction…
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November Journal Club by Max Wiedorn (CFEL)
Events 18 Nov 2015
Nov 18 2015
Max Wiedorn (CFEL) Will present the following paper: 1. Data collection strategies for time-resolved X-ray free-electron laser diffraction, and 2-color methods.… http://scitation.aip.org/content/aca/journal/sdy/2/4/10.1063/1.4922433 These presentations will be given live through gotomeeting at 3:00 pm EDT (2PM…
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Legal 25 Mar 2010
Please read these Terms of Use carefully before accessing . The site is operated by a community of researchers and hosted by BioXFEL. Your access to is subject to your agreement to these Terms of Use. By accessing , you accept, without limitation or qualification, these Terms of Use. Modification of the Agreement We maintain the right to modify…
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Clustering and main sources of variance of SFX data
Teaching Materials 29 Aug 2014
Wolfgang Brehm (University of Konstanz) Clustering approaches and variance analysis are explained using the example of the indexing ambiguity in serial crystallography.… Variance analysis can lead to a more accurate result with less data by correcting the main dependent errors.… Scroll down for video and…
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RNA structures and dynamics with Å resolution revealed by x-ray free-electron lasers
BioXFEL Publications 27 Sep 2023 Contributor(s): Kara Zielinski, Shuo Sui, Mark S. Hunter, Christopher Kupitz, Lois Pollack
http://dx.doi.org/10.1126/sciadv.adj3509 RNA macromolecules, like proteins, fold to assume shapes that are intimately connected to their broadly recognized biological functions; however, because of their high charge and dynamic nature, RNA structures are far more challenging to determine.… Previously unrecognized structural…
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Members
Dr. Ros received her PhD in Chemistry from the Swiss Federal Institute of Technology in Lausanne (EPFL, Switzerland) in 2000, where she started developing methods for protein analysis.… During this time she developed cutting-edge separation tools for particles and biomoclecules in microenvironments.… Dr. Ros’…
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Diffraction methods in Structural Biology Gordon Research Conference
Events 24 Jul 2022
Jul 24 2022
Structural biology is entering a new era. Not just the virus and biomedicine, not just astounding breakthroughs in prediction, but new and complementary approaches are exploding onto the scene. It is time to imagine what could be achieved if there were no barriers to structural information and to contemplate how we will combine our diverse…
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Diffraction Methods in Structural Biology Gordon Research Seminar
Events 23 Jul 2022
Jul 23 2022
The Gordon Research Seminar on Diffraction Methods in Structural Biology is a unique forum for graduate students, post-docs, and other scientists with comparable levels of experience and education to present and exchange new data and cutting-edge ideas.… Macromolecular crystallography is experiencing a revolution in the rate of…
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Rapid Data Quality Feedback and Online Monitoring using CASS
Teaching Materials 29 Aug 2014
Karol Nass (MPI) Description of the layout of CASS software suite and its functionality on the LCLS online and offline data streams.… Rapid offline processing of the raw LCLS data: crystal hit finding, extraction of images into HDF5 or cbf formats, pulse characteristics, fluorescence spectra, other data specific to an…
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Legal 2 May 2012
We respect your privacy. We will never sell your e-mail address or other personally identifiable information to third parties, or make that information publicly available without your permission.… We are a scientific project and we provide a free service, so we do track your activities on this site.… However,…
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Serial time-resolved crystallography of photosystem II using a femtosecond X-ray laser.
Publications 11 Sep 2014 Contributor(s): Tom Grant
Authors: Kupitz, C., Basu, S., Grotjohann, I., Fromme, R., Zatsepin, N. A., Rendek, K.… , Hunter, M. S., Shoeman, R. L., White, T. A., Wang, D., James, D., Yang, J. H., Cobb, D. E., Reeder, B.… G., Liu, H., Barty, A., Aquila, A. L., Deponte, D.… A., Bari, S., Bergkamp, J. J., Beyerlein, K. R.,…
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Single-femtosecond atomic-resolution observation of a protein traversing a conical intersection
BioXFEL Publications 15 Nov 2020
http://dx.doi.org/10.1101/2020.11.13.382218 The structural dynamics of a molecule are determined by the underlying potential energy landscape.… Posited almost a century ago 1, conical intersections remain the subject of intense scientific investigation 2–4. In biology, they play a pivotal role in vision, photosynthesis, and DNA…
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Events 12 Apr 2017
Apr 12 2017
We are very pleased to announce the first ever Virtual LCLS User Meeting to be held at 8 am Pacific time on April 12th.… The live stream can be found on April 12th here. This new initiative is an effort to better inform the users about the developments at LCLS before the upcoming LCLS proposal deadline on May…
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Call for Proposals - Experiments at European XFEL
Uncategorised 10 Nov 2020
The European X-Ray Free-Electron Laser Facility (European XFEL, https://www.xfel.eu) encourages the scientific community worldwide to submit proposals for User Experiments via the User Portal to the European XFEL (UPEX) until Wednesday, 16 December 2020 16:00 (local Hamburg/Schenefeld time - CET) … Beamtime will be allocated to…
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Biography 21 May 2013
Uwe Weierstall Department of Physics Arizona State University Tempe, AZ 85287-1504weier@asu.… Dr. Weierstall received his Ph.D., in Physics from the University of Tübingen, Germany in 1994 and then joined Arizona State University (ASU), as a postdoctoral fellow. He was employed as a Research Scientist at ASU from 1998 to 2008,…
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Double-focusing mixing jet for XFEL study of chemical kinetics
Teaching Materials 13 Oct 2015
Several liquid sample injection methods have been developed to satisfy the requirements for serial femtosecond X-ray nanocrystallography, which enables radiation-damage-free determination of molecular structure at room temperature.… A windowless liquid mixing jet device has been designed for this purpose.… The…
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SFX Data Analysis Workshop at 2015 ACA
Workshops 25 Jul 2015 Contributor(s): Nadia Zatsepin, Tom Grant
Serial femtosecond crystallography has yielded several major and unique advances in structural biology previously unattainable with conventional technologies, including the potential for sub-picosecond time-resolved crystallographic studies, probing cyclic or even non-cyclic reactions.… The development and appropriate use of new…
https://www.bioxfel.org/resources/2015-data-analysis-workshop-talks
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BioXFEL at USA Science & Engineering Festival
Events 5 Apr 2018
Apr 05 2018
The USA Science & Engineering Festival Expo, presented by Lockheed Martin, will take place on April 7-8, 2018 at the Walter E. Washington Convention Center in Washington, DC. The event is the nation’s largest celebration of science, technology, engineering and mathematics (STEM) featuring over 3,000 hands-on exhibits, 30 stage shows and…
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Members
Ed Lattman joined the University at Buffalo (UB), Department of Structural Biology as a faculty member, and Hauptman Woodward Medical Research Institute (HWI) as its Chief Executive Officer, in 2008.… Lattman spent his entire academic career at the Johns Hopkins University, beginning as a graduate student in Biophysics, and rising…
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Mapping protein dynamics at high spatial resolution with temperature-jump X-ray crystallography
BioXFEL Publications 18 Sep 2023 Contributor(s): Iris Diane Young, James Holton, James Fraser, Michael Thompson
http://dx.doi.org/10.1038/s41557-023-01329-4 AbstractUnderstanding and controlling protein motion at atomic resolution is a hallmark challenge for structural biologists and protein engineers because conformational dynamics are essential for complex functions such as enzyme catalysis and allosteric regulation.… Here we couple a…
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Events 9 Nov 2018
Nov 09 2018
Beamtime Proposals for SACLA 2019A Due Nov.… For more information please visit the SACLA website http://sacla.xfel.jp/?p1517&langen. １．Types of Proposals Call for 2019A Proposals at SACLA General Proposals (Non-Proprietary Research)1 General Proposals (Proprietary Research)2 1 For non-proprietary…
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BioXFEL Publications 31 Jul 2014 Contributor(s): Henry Chapman, Marc Messerschmidt
This paper gives an account of our progress towards performing femtosecond time-resolved photoelectron diffraction on gas-phase molecules in a pump–probe setup combining optical lasers and an X-ray free-electron laser.… We also show how the strong nanosecond laser pulse used for adiabatically laser-aligning the molecules…
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News 2 Dec 2019
The European XFEL marks in a new age of protein movie-making that enables enzymes involved in disease to be observed in real time.… To study the swiftness of biology – the protein chemistry behind every life function – scientists have need to see molecules changing and interacting in unimaginably rapid time increments –…
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Banff Meeting featuring Lois Pollack, Abbas Ourmazd, and Marius Schmidt
Events 2 Feb 2017
Feb 02 2017
5th Banff Meeting on Structural Dynamics (19-22 Feb 2017) Recent years have seen dramatic successes in providing ‘atomic level views’ of important transient phenomena in materials, molecular and even biomolecular systems. These landmark studies were enabled by breakthroughs in high time-resolution x-ray and electron diffraction,…
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Teaching Materials 3 Sep 2014
Chris O'Grady (SLAC) Psana is the main analysis tool developed by LCLS, upon which some other tools are based.… I will discuss recent psana developments and future plans.… reduced size" HDF5 files; ability to run psana on Windows/Mac "laptops" using virtualization. Scroll down for video and interactive…
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Structural enzymology using X-ray free electron lasers
News 29 Aug 2017
Mix-and-inject serial crystallography (MISC) is a technique designed to image enzyme catalyzed reactions in which small protein crystals are mixed with a substrate just prior to being probed by an X-ray pulse.… It provides (i) room temperature structures at near atomic resolution, (ii) time resolution ranging from microseconds to…
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Microfluidic Platforms for Bimolecular and Nanocrystal Separation
Seminars 24 Sep 2014 Contributor(s): Alexandra Ros
Dr. Alexandra Ros Analytical and bioanalytical applications of microfluidic devices or so called Lab-on-a-Chip Systems have been an extensive field of research over the past two decades.… In contrast to this approach of downscaling existing analytical techniques, research in the Ros lab focuses on microfluidics and its…
https://www.bioxfel.org/resources/microfluidic-platforms-for-bimolecular-and-nanocrystal-separation
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Events 20 Jun 2016
Jun 20 2016
BioXFEL is pleased to announce its XFEL Lightsource Seminar for Industry Scientists and BioXFEL members. This seminar will be held Monday, June 20th and is free of charge. Participants may attend in person at the Hauptman-Woodward Institute in Buffalo, NY or through the web conferencing service Zoom. X-ray free electron laser sources radically…
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BioXFEL Publications 13 Aug 2024 Contributor(s): Kara Zielinski, Lois Pollack
https://doi.org/10.1038/s42003-024-06672-x AbstractTransglutaminase 2 (TG2) is a GTP-binding, protein-crosslinking enzyme that has been investigated as a therapeutic target for Celiac disease, neurological disorders, and aggressive cancers.… TG2 mutants that constitutively adopt an open conformation are cytotoxic to cancer cells.…
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Events 17 Dec 2018
Dec 17 2018
Call for proposals The European X-Ray Free-Electron Laser Facility (European XFEL, http://www.xfel.eu) encourages the scientific community worldwide to submit proposals for Early User Experiments via the User Portal to the European XFEL (UPEX) until Monday 17 December 2018 14:00 (local Hamburg / Schenefeld time - UTC +1) ……
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Nora Berrah Named 2018 AAAS Fellow
News 13 Dec 2018
Professor Nora Berrah of the Department of Physics in the College of Liberal Arts and Sciences at University of Connecticut has been named a 2018 Fellow of the American Association for the Advancement of Science (AAAS).… Berrah, who was head of the physics department from 2014-2018, has been recognized for her distinguished…
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BioXFEL Seminar Series - Peter Schwander UWM
Events 2 Nov 2017
Nov 02 2017
Join us Thursday, November 2nd, as BioXFEL member and UWM Associate Professor, Peter Schwander discusses his recent accomplishments in Single Particle Imaging.… The seminar takes place at 3PM EDT (2PM CDT, 1PM MDT, 12PM PDT/MST) TitleSingle-Particle diffraction with the X-Ray Free Electron Laser: New Opportunities to…
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Segmented flow generator for serial crystallography at the European X-ray free electron laser
BioXFEL Publications 10 Sep 2020 Contributor(s): Austin Echelmeier, Marc Messerschmidt, Jesse David Coe, Darren Gary Thifault, Sabine Botha, Ana Egatz-Gomez, Sahir Ilyas Gandhi, Chelsie E Conrad, Caleb Alexander Madsen, Max Oliver Wiedorn, Derek Mendez, Uwe Weierstall, John Spence, Henry Chapman, Nadia Zatsepin, Petra Fromme, Richard Kirian, Alexandra Ros
http://dx.doi.org/10.1038/s41467-020-18156-7 AbstractSerial femtosecond crystallography (SFX) with X-ray free electron lasers (XFELs) allows structure determination of membrane proteins and time-resolved crystallography.… The European XFEL (EuXFEL) delivers femtosecond (fs) X-ray pulses in trains spaced 100 ms apart whereas…
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HWI Crystallization Workshop 2015 for BioXFEL Students and Postdoctoral Scholars
Events 2 Jun 2015
Jun 02 2015
Sponsored in part by: Please note agenda is subject to change. Day 1 Lectures, Tuesday, June 2, 2015 – Flickinger Lecture Hall TIME … TOPIC PRESENTER 8:30 - 9:00 am Light breakfast in HWI atrium All 9:00 - 9:05 am Welcome to the Workshop Ed Lattman 9:05 - 9:45 am Fundamentals of crystal…
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BioXFEL Publications 25 Sep 2024 Contributor(s): Kevin Gu, Megan Shelby, SRINIVASAN MUNIYAPPAN, Marius Schmidt, Sankar Raju Narayanasamy, Matthew Coleman, Matthias Frank
https://doi.org/10.1107/s1600576724007544 Compared with batch and vapor diffusion methods, counter diffusion can generate larger and higher-quality protein crystals yielding improved diffraction data and higher-resolution structures. Typically, counter-diffusion experiments are conducted in elongated chambers, such as glass capillaries, and the…
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Crystallization of the Large Membrane Protein Complex Photosystem I in a Microfluidic Channel
Teaching Materials 9 Oct 2015
Traditional macroscale protein crystallization is accomplished nontrivially by exploring a range of protein concentrations and buffers in solution until a suitable combination is attained. This methodology is time-consuming and resource-intensive, hindering protein structure determination.… Structure determination techniques…
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Biography 21 May 2013
Deanna ClarkArizona State UniversityP.… Box 871504Tempe, AZ 85287-1504deanna.… edu(480) 965-4073 Deanna Clark pursued studies in communications and journalism at the University of Minnesota, where she received a Bachelor of Arts degree.… Clark is a gifted Program Manager, who coordinates…
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BioXFEL Publications 12 Apr 2019 Contributor(s): Rita Graceffa, Marc Messerschmidt
http://dx.doi.org/10.1107/s1600577519003308 The European X-ray Free-Electron Laser (FEL) became the first operational high-repetition-rate hard X-ray FEL with first lasing in May 2017. Biological structure determination has already benefitted from the unique properties and capabilities of X-ray FELs, predominantly through the development and…
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Postdoctoral Research Scientist Position
Opportunities 24 Apr 2020
The Hauptman-Woodward Institute seeks a postdoctoral research scientist in the field of synthetic organic chemistry. The successful candidate will work within the National Science Foundation’s BioXFEL Science and Technology Center (www.bioxfel.org), a consortium of 13 research labs across the USA dedicated to the study of protein dynamics by…
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Deducing fast electron density changes in uncrystallized biomolecules
Teaching Materials 13 Oct 2015
We propose a method for deducing time-resolved structural changes in uncrystallized biomolecules in solution.… The experiment is somewhat like a pump–probe version of an experiment on small angle X-ray scattering, except that the data expected by the algorithm are not just the radial variation of the averaged intensities. The…
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Femtosecond crystallography of membrane proteins in the lipidic cubic phase (LCP) Webinar
Events 13 Nov 2014
Nov 13 2014
Rigaku Webinar Series Despite recent technological advances in heterologous expression, stabilization and crystallization of membrane proteins (MPs), their structural studies remain difficult and require new transformative approaches.… The recent appearance of X-ray free-electron lasers (XFELs) has further enabled structure…
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Scientists Catch Snapshot of Photosynthesis
News 16 Jan 2017
A mystery that has perplexed scientists for centuries may soon be unraveling. Researchers at the Department of Energy’s SLAC National Accelerator Laboratory have captured for the first time how a protein complex—photosystem II—harvests energy from sunlight and uses it to split water into hydrogen and oxygen, a process that generates the…
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European XFEL Virtual User Information Meeting - 7th Call for Proposals
Events 25 Nov 2020
Nov 25 2020
European XFEL Virtual User Information Meeting - 7th Call for Proposals A virtual information meeting will be hosted by the European XFEL User Organization Executive Committee (UOEC) and held on 25 November 2020 17:30-19:30 (Hamburg/Schenefeld local time - CET) … The event will specifically address our 7th Call…
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BioXFEL Protein Production and Purification Workshop at UPRM
Events 11 May 2016
May 11 2016
BioXFEL Protein Production and Purification Workshop The BioXFEL Science and Technology Center will be sponsoring a 1-day event on May 11th, 2016 for all interested UPR researchers. The full day course will cover the basics of the biochemistry, cloning, expression and purification of proteins. We will discuss the theory behind common…
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Examples of Biological Small Angle Scattering
BioXFEL Publications 20 Sep 2018 Contributor(s): Eaton E Lattman, Edward Snell
http://dx.doi.org/10.1093/oso/9780199670871.003.0012 In this chapter we illustrate the biological applications of small angle scattering. We cover examples of contrast matching has been used in the neutron case and with SAXS,. time-resolved studies that have helped reveal mechanism and how SAXS or SANS as a solution technique can access information…
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September BioXFEL Journal Club with Rahel Woldeyes (UCSF) and Jonathan Clinger (Rice)
Events 16 Sep 2015
Sep 16 2015
For our September BioXFEL Journal Clubs we have 2 students presenting XFEL-related research papers.… Rahel Woldeyes, a graduate student from UCSF, will present: … "Liu, H., Zatsepin, N. A., et al. (2013). Ab-initio phasing using nanocrystal shape transforms with incomplete unit cells. IUCrJ 1, 19-27."…
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Postdoc position at Cornell University: Dynamic biophysical studies using XFELs
Opportunities 24 Jun 2020
We invite applications for a postdoctoral position in the Pollack Lab in the School of Applied and Engineering Physics at Cornell University. We are an interdisciplinary research group, known for the innovative application of x-ray scattering to study biological macromolecules. The goal of this project is to develop and apply new instruments for…
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EUCALL Workshop: Biology at Advanced Laser Light Sources
Events 30 Nov 2017
Nov 30 2017
The European Cluster of Advanced Laser Light Sources (EUCALL) invites you to participate in the EUCALL Workshop "Biology at Advanced Laser Light Sources".The workshop addresses, in particular, present and future scientific users of these advanced light sources in the area of biology. The workshop will highlight specific strengths of…
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Real-time molecular scale observation of crystal formation
News 12 Jan 2017
How molecules in solution form crystal nuclei, which then grow into large crystals, is a poorly understood phenomenon.… However, a non-classical mechanism suggests the formation of an amorphous dense phase that reorders to form stable crystal nuclei.… Here, using polyoxometallates, we show that the formation of…
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Events 18 Oct 2021
Oct 18 2021
BioXFEL is sponsoring a remote Phase Retrieval Workshop Monday, October 18 through Tuesday, October 19 2021. The workshop will feature a mix of lectures and virtual demonstrations delivered by BioXFEL staff, scholars, and collaborators.… A Zoom meeting access code will be emailed out before the start of the…
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Double-focusing mixing jet for XFEL study of chemical kinetics
BioXFEL Publications 6 Oct 2014 Contributor(s): Uwe Weierstall, Lois Pollack, John Spence
Several liquid sample injection methods have been developed to satisfy the requirements for serial femtosecond X-ray nanocrystallography, which enables radiation-damage-free determination of molecular structure at room temperature.… A windowless liquid mixing jet device has been designed for this purpose.… The…
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News 25 Sep 2018
Structure Biologist (f/m/d) in the field of X-ray Crystallography Deutsches Elektronen-Synchrotron DESY - DESY - Helmholtz Association … Hamburg, Germany Posted about 1 month ago. Expires on September 26, 2018 Workgroup: FS-CFEL-1 Area of research: Scientific / postdoctoral posts Job Description: … DESY…
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Shanghai team develops 'world's brightest VUV free-electron laser'
News 2 Feb 2017
Scientists completing a new free-electron laser (FEL) in China say that the facility now delivers the world’s brightest source of light in the vacuum ultraviolet (VUV) spectral region, yielding a tool with unprecedented scientific utility.… The Dalian Coherent Light Source (DCLS) is said to be the only high-gain FEL user facility…
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A Bright Future for Serial Femtosecond Crystallography with XFELs
News 10 Aug 2017
BioXFEL scientist Vadim Cherezov and his colleagues released a new publication to CellPress: X-ray free electron lasers (XFELs) have the potential to revolutionize macromolecular structural biology due to the unique combination of spatial coherence, extreme peak brilliance, and short duration of X-ray pulses. A recently emerged serial femtosecond…
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Stella Lisova - Maestro of the Liquid Jet
News 6 Mar 2019
Most of us in BioXFEL owe the success of our work at LCLS and other XFELs to Stella's remarkable skills. The precision grinding and manufacturing she undertakes to produce nozzles for our liquid jets has enabled much of the static structure determination and practically all of the time-resolved protein crystallography we do at XFELs since she…
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UWM Opening: Research Associate
Opportunities 6 Aug 2021
Research Associate Position College of Letters and Science Department of Physics … August 2021 The Department of Physics at the University of Wisconsin-Milwaukee (UWM) seeks outstanding candidate(s) for one or two post-doctoral position in the group of Prof.… The successful applicant will become part of an…
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Characterization and use of the spent beam for serial operation of LCLS
BioXFEL Publications 11 Apr 2015 Contributor(s): Marc Messerschmidt
X-ray free-electron laser sources such as the Linac Coherent Light Source offer very exciting possibilities for unique research. However, beam time at such facilities is very limited and in high demand.… One such effort involves re-using the so-called spent beam that passes through the hole in an area detector after a weak…
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The Atomic, Molecular and Optical Science instrument at the Linac Coherent Light Source
BioXFEL Publications 16 Apr 2015 Contributor(s): Marc Messerschmidt
The Atomic, Molecular and Optical Science (AMO) instrument at the Linac Coherent Light Source (LCLS) provides a tight soft X-ray focus into one of three experimental endstations.… There is a suite of spectrometers and two photon area detectors available.… Recent scientific highlights illustrate the imaging,…
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Call for Papers on "Novel Structural Studies of Coronavirus Proteins"
News 26 Mar 2021
This Special Issue, “Novel Structural Studies of Coronavirus Proteins”, will gather both research and review articles from experts in the field with the ultimate goal of creating an international platform that provides with rich and reference information on the latest advances and exciting discoveries in the field of X-ray…
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XFEL data analysis for structural biology
News 28 Feb 2017
X-ray Free Electron Lasers (XFELs) have advanced research in structure biology, by exploiting their ultra-short and bright X-ray pulses. The resulting “diffraction before destruction” experimental approach allows data collection to outrun radiation damage, a crucial factor that has often limited resolution in the structure determination of…
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Series 21 Jul 2015 Contributor(s): Nadia Zatsepin
Detectors at CXI … The main detectors used at the Coherent X-ray Imaging (CXI) endstation are Cornell-SLAC pixel array detectors (CSPAD).… CXI Standard Configuration" in the micron-focus chamber the most common operating mode, which includes 2 full size CSPADs.……
https://www.bioxfel.org/resources/LCLSdata_detector_geometry
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Three-dimensional-printed gas dynamic virtual nozzles for x-ray laser sample delivery
News 2 Mar 2017
Reliable sample delivery is essential to biological imaging using X-ray Free Electron Lasers (XFELs).… However, many important aspects of GDVN functionality have yet to be thoroughly understood and/or refined due to fabrication limitations.… This technique allows rapid prototyping of a wide range of different…
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Events 22 Aug 2017
Aug 22 2017
BioXFEL member Belinda Pastrana will be giving a talk at the BIOProcessing Summit in Boston, MA. Her talk "Novel Approach towards the Evaluation of Critical Quality Attributes and Stability of Proteins" centers on therapeutic proteins. Therapeutic proteins are highly complex molecules; their CQAs require diverse bioanalytical techniques to…
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BioXFEL Publications 9 Apr 2015
Multiplexing of the Linac Coherent Light Source beam was demonstrated for hard X-rays by spectral division using a near-perfect diamond thin-crystal monochromator operating in the Bragg geometry.… In this report, the structure determination of a prototypical protein was performed using serial femtosecond crystallography…
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Drop-on-demand sample delivery for studying biocatalysts in action at X-ray free-electron lasers
News 31 May 2017
X-ray crystallography at X-ray free-electron laser sources is a powerful method for studying macromolecules at biologically relevant temperatures. Moreover, when combined with complementary techniques like X-ray emission spectroscopy, both global structures and chemical properties of metalloenzymes can be obtained concurrently, providing insights…
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Biography 21 May 2013
Marc MesserschmidtAssoc Research ProfessorSchool of Molecular Sciences & Biodesign Center for Applied Structural Discovery marc@hwi.… edu(716) 898-8610 Dr. Messerschmidt studied chemistry and received his PhD from the crystallography department in 2004 at the Free University Berlin, Germany.… He then…
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Polo: an open-source graphical user interface for crystallization screening
BioXFEL Publications 19 Feb 2021 Contributor(s): Ethan T Holleman, Sarah EJ Bowman
http://dx.doi.org/10.1107/s1600576721000108 Polo is a Python-based graphical user interface designed to streamline viewing and analysis of images to monitor crystal growth, with a specific target to enable users of the High-Throughput Crystallization Screening Center at Hauptman-Woodward Medical Research Institute (HWI) to…
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Students displaced by Hurricane Maria at HWI
News 27 Jul 2018
In September of 2017, Hurricane Maria hit Puerto Rico with 175 mph winds, cutting the island in half and unleashing torrents of rain and devastation.… Natalia Crespo was an undergrad majoring in Industrial Biotechnology at the University of Puerto Rico when Maria hit.… “Classes got canceled a few days before…
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Brookhaven Postoctoral Position
Opportunities 17 Nov 2021
Brookhaven National Laboratory (www.bnl.gov) delivers discovery science and transformative technology to power and secure the nation's future.… The Lab is primarily supported by the U.S. Department of Energy's (DOE) Office of Science.… BSA is a partnership between Battelle and The Research Foundation for the…
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Structure-factor analysis of femtosecond microdiffraction patterns from protein nanocrystals
Publications 1 Mar 2011 Contributor(s): Petra Fromme, Mark S. Hunter, Marius Schmidt, John Spence, James Holton, Henry Chapman
A complete set of structure factors has been extracted from hundreds of thousands of femtosecond single-shot X-ray microdiffraction patterns taken from randomly oriented nanocrystals. The method of Monte Carlo integration over crystallite size and orientation was applied to experimental data from Photosystem I nanocrystals. This arrives at…
https://www.bioxfel.org/resources/Structure-factor-analysis-of-femtosecond-microdiffraction
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Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta
BioXFEL Publications 27 Apr 2016 Contributor(s): James Fraser
http://dx.doi.org/10.1101/050286 Cryo-EM has revealed many challenging yet exciting macromolecular assemblies at near-atomic resolution (3-4.5 Angstrom), providing biological phenomena with molecular descriptions.… Manually refining thousands of amino acids -- typical in a macromolecular assembly -- is tedious and…
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Transient lattice contraction in the solid-to-plasma transition
BioXFEL Publications 30 Jan 2016 Contributor(s): Marc Messerschmidt
http://dx.doi.org/10.1126/sciadv.1500837 Ken R. Ferguson and Maximilian Bucher and Tais Gorkhover and Sébastien Boutet and Hironobu Fukuzawa and Jason E. Koglin and Yoshiaki Kumagai and Alberto Lutman and Agostino Marinelli and Marc Messerschmidt and Kiyonobu Nagaya and Jim Turner and Kiyoshi Ueda and Garth J. Williams and Philip H. Bucksbaum and…
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Events 29 Sep 2015
Sep 29 2015
How do you make a movie of a single particle jiggling and wiggling with atomic resolution and ultra-fast temporal resolution? How do you calculate the energy landscape or the kinetics/dynamics of a sequence of conformational changes? What do you do with millions and millions of snapshots, each for a random orientational and/or conformational state,…
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Preparation of microcrystals in lipidic cubic phase for serial femtosecond crystallography
News 27 Jun 2017
BioXFEL researchers in collaboration with others established a procedure for serial femtosecond crystallography (SFX) in lipidic cubic phase (LCP) for protein structure determination at X-ray free-electron lasers (XFELs).… LCP is a liquid-crystalline mesophase composed of lipids and water. It provides a membrane-mimicking…
