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The highly automated macromolecular crystallography beamline AMX/17-ID-1 is an undulator-based high-intensity (>5 × 1012 photons s−1), micro-focus (7 µm × 5 µm), low-divergence (1 mrad × 0.35 mrad) energy-tunable (5–18 keV) beamline at the NSLS-II, Brookhaven National Laboratory, Upton, NY, USA. It is one of the three life science beamlines constructed by the NIH under the ABBIX project and it shares sector 17-ID with the FMX beamline, the frontier micro-focus macromolecular crystallography beamline. AMX saw first light in March 2016 and started general user operation in February 2017. At AMX, emphasis has been placed on high throughput, high capacity, and automation to enable data collection from the most challenging projects using an intense micro-focus beam. Here, the current state and capabilities of the beamline are reported, and the different macromolecular crystallography experiments that are routinely performed at AMX/17-ID-1 as well as some plans for the near future are presented.

The highly automated macromolecular crystallography beamline AMX/17-ID-1 is an undulator-based high-intensity (>5 - 1012 photons s-1), micro-focus (7 mm - 5 mm), low-divergence (1 mrad - 0.35 mrad) energy-tunable (5-18 keV) beamline at the NSLS-II, Brookhaven National Laboratory, Upton, NY, USA. It is one of the three life science beamlines constructed by the NIH under the ABBIX project and it shares sector 17-ID with the FMX beamline, the frontier micro-focus macromolecular crystallography beamline. AMX saw first light in March 2016 and started general user operation in February 2017. At AMX, emphasis has been placed on high throughput, high capacity, and automation to enable data collection from the most challenging projects using an intense micro-focus beam. Here, the current state and capabilities of the beamline are reported, and the different macromolecular crystallography experiments that are routinely performed at AMX/17-ID-1 as well as some plans for the near future are presented. [ABSTRACT FROM AUTHOR]

High-pressure diamond-anvil cell synchrotron X-ray diffraction experiments were conducted on single-crystal samples of natural orthoamphibole; gedrite; with composition; (K0.002Na0.394)(Mg2)(Mg1.637Fe2.245Mn0.004Ca0.022Cr0.003Na0.037Al1.052)(Si6.517Al1.483)O22(OH)2. The samples were compressed at 298 K up to a maximum pressure of 27(1) GPa. In this pressure regime, we observed a displacive phase transition between 15.1(7) and 21(1) GPa from the orthorhombic Pnma phase to a new structure with space group P21/m; which is different from the familiar P21/m structure of cummingtonite and retains the (+, +, −, −) I-beam stacking sequence of the orthorhombic structure. The unit cell parameters for the new phase at 21(1) GPa are a = 17.514(3), b = 17.077(1), c = 4.9907(2) Å and β = 92.882(6)°. The high-pressure P21/m phase is the first amphibole structure to show the existence of four crystallographically distinct silicate double chains. The orthorhombic to monoclinic phase transition is characterized by an increase in the degree of kinking of the double silicate chains and is analogous to displacive phase changes recently reported in orthopyroxenes, highlighting the parallel structural relations and phase transformation behavior of orthorhombic single- and double-chain silicates.

The more than 100.000 protein structures determined by X-ray crystallography provide a wealth of information for the characterization of biological processes at the molecular level. However, several crystallographic artifacts, including conformational selection, crystallization conditions and radiation damages, may affect the quality and the interpretation of the electron density map, thus limiting the relevance of structure determinations. Moreover, for most of these structures no functional data have been obtained in the crystalline state, thus posing serious questions on their validity in the inference for protein mechanisms. In order to solve these issues, spectroscopic methods have been applied for the determination of equilibrium and kinetic properties of proteins in the crystalline state. These methods are UV-vis spectrophotometry, spectrofluorimetry, IR, EPR, Raman and resonance Raman spectroscopy. Some of these approaches have been implemented with on-line instruments at X-ray synchrotron beamlines. Here, we provide an overview of investigations predominantly carried out in our laboratory by single crystal polarized absorption UV-vis microspectrophotometry, the most applied technique for the functional characterization of proteins in the crystalline state. Studies on hemoglobins, pyridoxal 5’-phosphate dependent enzymes and green fluorescent protein in the crystalline state have addressed key biological issues, leading to either straightforward structure-function correlations or limitations to structure-based mechanisms.

Forsterite, Mg2SiO4, the magnesian end-member of the olivine system, is the archetypal example of an orthosilicate structure. We have conducted synchrotron-based single-crystal X-ray diffraction experiments to 90 GPa on synthetic end-member forsterite to study its equation of state and phase transitions. Upon room-temperature compression, the forsterite structure is observed to 48 GPa. By fitting a third-order Birch-Murnaghan equation of state to our compression data, we obtain the zeropressure isothermal bulk modulus, K0T = 130.0(9) GPa and its pressure derivative, K0T' = 4.12(7) for a fixed room-pressure volume, V0 = 290.1(1) Å3, in good agreement with earlier work. At 50 GPa, a phase transition to a new structure (forsterite II) occurs, followed by a second transition to forsterite III at 58 GPa. Forsterite III undergoes no additional phase transitions until at least 90 GPa. There is an ~4.8% volume reduction between forsterite and forsterite II, and a further ~4.2% volume reduction between forsterite II and III. On decompression forsterite III remains until as low as 12 GPa, but becomes amorphous at ambient conditions. Using our X-ray diffraction data together with an evolutionary crystal structure prediction algorithm and metadynamics simulations, we find that forsterite II has triclinic space group P1 and forsterite III has orthorhombic space group Cmc21. Both high-pressure phases are metastable. Metadynamics simulations show a stepwise phase transition sequence from 4-coordinated Si in forsterite to mixed tetrahedral and octahedral Si (as in forsterite II), and then fully sixfold-coordinated Si (as in forsterite III), occurring by displacement in [001](100). The forsterite III structure is a member of the family of post-spinel structures adopted by compositions such as CaFe2O4 and CaTi2O4. [ABSTRACT FROM AUTHOR]

The Paul Scherrer Institute (PSI/Switzerland) is planning an X-ray free electron laser facility (SwissFEL) using novel concepts for electron emission, high gradient acceleration and effective bunch compression. Based on a normal-conducting 5.8 GeV linear accelerator, SwissFEL will cover a spectral range of 0.1-7 nm wavelength. An ultra bright electron source was first developed and commissioned in 2008 followed by the construction of a 250 MeV accelerator facility in order to validate the concepts to generate and transport high brightness beams. This facility will be used in the future as the injector for the SwissFEL linac. An amount of typically 100 magnets of 4 different types (solenoids, quadrupoles, dipoles and correctors) is required in order to preserve the high brightness and the low emittance of the femto-second electron pulses. All the magnets are designed and magnetically measured at PSI in order to ensure that the required tolerances are fulfilled. The field gradient, the multipole contents and the magnetic center position are measured with two independent systems, an automated scanner and a uniaxial Hall Probe. We review the magnet design required for the injection phase and discuss the first results of the magnetic measurements. [ABSTRACT FROM AUTHOR]

Phase-contrast imaging provides enhanced image contrast and is important for non-destructive evaluation of structural materials. In this paper, experimental results on in-line phase-contrast imaging using a synchrotron source (ELETTRA, Italy) for objects required in material science applications are discussed. Experiments have been carried out on two types of samples, pyrocarl~on-coated zirconia and pyrocarbon-coated alumina microspheres. These have applications in both reactor and industrial fields. The phase-contrast imaging 1technique is found to be very useful in visualizing and determining the coating thickness of pyrocarbon on zirconia and alumina microspheres. The experiments were carried out at X-ray energies of 16, 18 and 20 keV and different object-to-detector distances. The results describe the contrast values and signal-to-noise ratio for both samples. A comprehensive study was carried out to determine the thickness of the pyrocarbon coating on zirconia and alumina microspheres of diameter 500 ~m. The advantages of phase-contrast images are discussed in terms of contrast and resolution, and a comparison is made with absorption images. The results show considerable improvement in contrast with phase-contrast imaging as compared with absorption radiography. [ABSTRACT FROM AUTHOR]

High-pressure diamond-anvil cell synchrotron X-ray diffraction experiments were conducted on single-crystal samples of natural orthoamphibole; gedrite; with composition; (K0.002Na0.394)(Mg2)(Mg1.637Fe2.245Mn0.004Ca0.022Cr0.003Na0.037Al1.052)(Si6.517Al1.483)O22(OH)2. The samples were compressed at 298 K up to a maximum pressure of 27(1) GPa. In this pressure regime, we observed a displacive phase transition between 15.1(7) and 21(1) GPa from the orthorhombic Pnma phase to a new structure with space group P21/m; which is different from the familiar P21/m structure of cummingtonite and retains the (+, +, −, −) I-beam stacking sequence of the orthorhombic structure. The unit cell parameters for the new phase at 21(1) GPa are a = 17.514(3), b = 17.077(1), c = 4.9907(2) Å and β = 92.882(6)°. The high-pressure P21/m phase is the first amphibole structure to show the existence of four crystallographically distinct silicate double chains. The orthorhombic to monoclinic phase transition is characterized by an increase in the degree of kinking of the double silicate chains and is analogous to displacive phase changes recently reported in orthopyroxenes, highlighting the parallel structural relations and phase transformation behavior of orthorhombic single- and double-chain silicates. [ABSTRACT FROM AUTHOR]

The more than 100,000 protein structures determined by X-ray crystallography provide a wealth of information for the characterization of biological processes at the molecular level. However, several crystallographic "artifacts," including conformational selection, crystallization conditions and radiation damages, may affect the quality and the interpretation of the electron density maps, thus limiting the relevance of structure determinations. Moreover, for most of these structures, no functional data have been obtained in the crystalline state, thus posing serious questions on their validity in infereing protein mechanisms. In order to solve these issues, spectroscopic methods have been applied for the determination of equilibrium and kinetic properties of proteins in the crystalline state. These methods are UV-vis spectrophotometry, spectrofluorimetry, IR, EPR, Raman, and resonance Raman spectroscopy. Some of these approaches have been implemented with on-line instruments at X-ray synchrotron beamlines. Here, we provide an overview of investigations predominantly carried out in our laboratory by single crystal polarized absorption UV-vis microspectrophotometry, the most applied technique for the functional characterization of proteins in the crystalline state. Studies on hemoglobins, pyridoxal 5'-phosphate dependent enzymes and green fluorescent protein in the crystalline state have addressed key biological issues, leading to either straightforward structure-function correlations or limitations to structure-based mechanisms.