Ultrafast Electron Crystallography: Transient Structures of Molecules, Surfaces, and Phase Transitions

Proceedings of the National Academy of Sciences of the United States of America. Feb, 2004  |  Pubmed ID: 14745037

The static structure of macromolecular assemblies can be mapped out with atomic-scale resolution by using electron diffraction and microscopy of crystals. For transient nonequilibrium structures, which are critical to the understanding of dynamics and mechanisms, both spatial and temporal resolutions are required; the shortest scales of length (0.1-1 nm) and time (10(-13) to 10(-12) s) represent the quantum limit, the nonstatistical regime of rates. Here, we report the development of ultrafast electron crystallography for direct determination of structures with submonolayer sensitivity. In these experiments, we use crystalline silicon as a template for different adsorbates: hydrogen, chlorine, and trifluoroiodomethane. We observe the coherent restructuring of the surface layers with subangstrom displacement of atoms after the ultrafast heat impulse. This nonequilibrium dynamics, which is monitored in steps of 2 ps (total change

Ultrafast Electron Crystallography of Interfacial Water

Science (New York, N.Y.). Apr, 2004  |  Pubmed ID: 15064414

We report direct determination of the structures and dynamics of interfacial water on a hydrophilic surface with atomic-scale resolution using ultrafast electron crystallography. On the nanometer scale, we observed the coexistence of ordered surface water and crystallite-like ice structures, evident in the superposition of Bragg spots and Debye-Scherrer rings. The structures were determined to be dominantly cubic, but each undergoes different dynamics after the ultrafast substrate temperature jump. From changes in local bond distances (OH.O and O.O) with time, we elucidated the structural changes in the far-from-equilibrium regime at short times and near-equilibration at long times.

Ultrafast Electron Crystallography of Surface Structural Dynamics with Atomic-scale Resolution

Angewandte Chemie (International Ed. in English). May, 2004  |  Pubmed ID: 18629996

Atomic-scale Dynamical Structures of Fatty Acid Bilayers Observed by Ultrafast Electron Crystallography

Proceedings of the National Academy of Sciences of the United States of America. Jun, 2005  |  Pubmed ID: 15956181

The structure and dynamics of a biological model bilayer are reported with atomic-scale resolution by using ultrafast electron crystallography. The bilayer was deposited as a Langmuir-Blodgett structure of arachidic (eicosanoic) fatty acids with the two chains containing 40 carbon atoms (approximately = 50 angstroms), on a hydrophobic substrate, the hydrogen terminated silicon(111) surface. We determined the structure of the 2D assembly, establishing the orientation of the chains and the subunit cell of the CH2 distances: a0 = 4.7 angstroms, b0 = 8.0 angstroms, and c0 = 2.54 angstroms. For structural dynamics, the diffraction frames were taken every 1 picosecond after a femtosecond temperature jump. The observed motions, with sub-angstroms resolution and monolayer sensitivity, clearly indicate the coherent anisotropic expansion of the bilayer solely along the aliphatic chains, followed by nonequilibrium contraction and restructuring at longer times. This motion is indicative of a nonlinear behavior among the anharmonically coupled bonds on the ultrashort time scale and energy redistribution and diffusion on the longer time scale. The ability to observe such atomic motions of complex structures and at interfaces is a significant leap forward for the determination of macromolecular dynamical structures by using ultrafast electron crystallography.

Ultrafast Electron Crystallography of Phospholipids

Angewandte Chemie (International Ed. in English). Aug, 2006  |  Pubmed ID: 16881036

Molecular Organization of Gram-negative Peptidoglycan

Proceedings of the National Academy of Sciences of the United States of America. Dec, 2008  |  Pubmed ID: 19033194

The stress-bearing component of the bacterial cell wall--a multi-gigadalton bag-like molecule called the sacculus--is synthesized from peptidoglycan. Whereas the chemical composition and the 3-dimensional structure of the peptidoglycan subunit (in at least one conformation) are known, the architecture of the assembled sacculus is not. Four decades' worth of biochemical and electron microscopy experiments have resulted in two leading 3-D peptidoglycan models: "Layered" and "Scaffold", in which the glycan strands are parallel and perpendicular to the cell surface, respectively. Here we resolved the basic architecture of purified, frozen-hydrated sacculi through electron cryotomography. In the Gram-negative sacculus, a single layer of glycans lie parallel to the cell surface, roughly perpendicular to the long axis of the cell, encircling the cell in a disorganized hoop-like fashion.

Universal Architecture of Bacterial Chemoreceptor Arrays

Proceedings of the National Academy of Sciences of the United States of America. Oct, 2009  |  Pubmed ID: 19805102

Chemoreceptors are key components of the high-performance signal transduction system that controls bacterial chemotaxis. Chemoreceptors are typically localized in a cluster at the cell pole, where interactions among the receptors in the cluster are thought to contribute to the high sensitivity, wide dynamic range, and precise adaptation of the signaling system. Previous structural and genomic studies have produced conflicting models, however, for the arrangement of the chemoreceptors in the clusters. Using whole-cell electron cryo-tomography, here we show that chemoreceptors of different classes and in many different species representing several major bacterial phyla are all arranged into a highly conserved, 12-nm hexagonal array consistent with the proposed "trimer of dimers" organization. The various observed lengths of the receptors confirm current models for the methylation, flexible bundle, signaling, and linker sub-domains in vivo. Our results suggest that the basic mechanism and function of receptor clustering is universal among bacterial species and was thus conserved during evolution.

Correlated Light and Electron Cryo-microscopy

Methods in Enzymology. 2010  |  Pubmed ID: 20887863

Light and electron cryo-microscopy have each proven to be powerful tools to study biological structures in a near-native state. Light microscopy provides important localization information, while electron microscopy provides the resolution necessary to resolve fine structural details. Imaging the same sample by both light and electron cryo-microscopy is a powerful new approach that combines the strengths of both techniques to provide novel insights into cellular ultrastructure. In this chapter, the methods and instrumentation currently used to correlate light and electron cryo-microscopy are described in detail.

Long Helical Filaments Are Not Seen Encircling Cells in Electron Cryotomograms of Rod-shaped Bacteria

Biochemical and Biophysical Research Communications. Apr, 2011  |  Pubmed ID: 21419100

How rod-shaped bacteria form and maintain their shape is an important question in bacterial cell biology. Results from fluorescent light microscopy have led many to believe that the actin homolog MreB and a number of other proteins form long helical filaments along the inner membrane of the cell. Here we show using electron cryotomography of six different rod-shaped bacterial species, at macromolecular resolution, that no long (> 80 nm) helical filaments exist near or along either surface of the inner membrane. We also use correlated cryo-fluorescent light microscopy (cryo-fLM) and electron cryo-tomography (ECT) to identify cytoplasmic bundles of MreB, showing that MreB filaments are detectable by ECT. In light of these results, the structure and function of MreB must be reconsidered: instead of acting as a large, rigid scaffold that localizes cell-wall synthetic machinery, moving MreB complexes may apply tension to growing peptidoglycan strands to ensure their orderly, linear insertion.

Structural Diversity of Bacterial Flagellar Motors

The EMBO Journal. Jul, 2011  |  Pubmed ID: 21673657

The bacterial flagellum is one of nature's most amazing and well-studied nanomachines. Its cell-wall-anchored motor uses chemical energy to rotate a microns-long filament and propel the bacterium towards nutrients and away from toxins. While much is known about flagellar motors from certain model organisms, their diversity across the bacterial kingdom is less well characterized, allowing the occasional misrepresentation of the motor as an invariant, ideal machine. Here, we present an electron cryotomographical survey of flagellar motor architectures throughout the Bacteria. While a conserved structural core was observed in all 11 bacteria imaged, surprisingly novel and divergent structures as well as different symmetries were observed surrounding the core. Correlating the motor structures with the presence and absence of particular motor genes in each organism suggested the locations of five proteins involved in the export apparatus including FliI, whose position below the C-ring was confirmed by imaging a deletion strain. The combination of conserved and specially-adapted structures seen here sheds light on how this complex protein nanomachine has evolved to meet the needs of different species.