Daria Khvostichenko

A molecular force probe

Force probes allow reaction rates to be measured as a function of the restoring force in a molecule that has been stretched or compressed. Unlike strain energy, approaches based on restoring force allow quantitative molecular understanding of phenomena as diverse as translation of microscopic objects by reacting molecules, crack propagation and mechanosensing. Conceptually, localized reactions offer the best opportunity to gain fundamental insights into how rates vary with restoring forces, but such reactions are particularly difficult to study systematically using microscopic force probes. Here, we show how a molecular force probe, stiff stilbene, simplifies force spectroscopy of localized reactions. We illustrate the capabilities of our approach by validating the central postulate of chemomechanical kinetics--force lowers the activation barrier proportionally to the difference in a single internuclear distance between the ground and transition states projected on the force vector--on a paradigmatic unimolecular reaction: concerted dissociation of the C-C bond.

X‑ray Transparent Microfluidic Chip for Mesophase-Based Crystallization of Membrane Proteins and On-Chip Structure Determination

Crystallization from lipidic mesophase matrices is a promising route to diffraction-quality crystals and structures of membrane proteins. The microfluidic approach reported here eliminates two bottlenecks of the standard mesophase-based crystallization protocols: (i) manual preparation of viscous mesophases and (ii) manual harvesting of often small and fragile protein crystals. In the approach reported here, protein-loaded mesophases are formulated in an X-ray transparent microfluidic chip using only 60 nL of the protein solution per crystallization trial. The X-ray transparency of the chip enables diffraction data collection from multiple crystals residing in microfluidic wells, eliminating the normally required manual harvesting and mounting of individual crystals. We validated our approach by on-chip crystallization of photosynthetic reaction center, a membrane protein from Rhodobacter sphaeroides, followed by solving its structure to a resolution of 2.5 Å using X-ray diffraction data collected on-chip under ambient conditions. A moderate conformational change in hydrophilic chains of the protein was observed when comparing the on-chip, room temperature structure with known structures for which data were acquired under cryogenic conditions.

Macrocyclic Disulfides for Studies of Sensitized Photolysis of the SS Bond

Sensitized photolysis: We describe a series of macrocyclic disulfides containing stiff stilbene (see scheme) as the intramolecular photosensitizer designed for fundamental mechanistic studies of sensitized photolysis of the S-S bond. Preliminary studies revealed weak temperature dependence of the quantum yields, which decreased exponentially with Boltzmann-weighted average separation between the S-S bond and stiff stilbene.

Simple dimer containing dissociatively stable mono-imidazole ligated ferrohemes

In weakly coordinating solvents FeII meso-(N-methylimidazol-2-yl)porphine Fe exists as a stable dimer (Kd=50+/-30 nM) that binds ligands without undergoing dissociation and is presently the simplest complex in which the mono-imidazole ligation of a ferroheme is enforced without excess imidazole in solution.

Effects of Detergent β-Octylglucoside and Phosphate Salt Solutions on Phase Behavior of Monoolein Mesophases

Using small-angle x-ray scattering (SAXS), we investigated the phase behavior of mesophases of monoolein (MO) mixed with additives commonly used for the crystallization of membrane proteins from lipidic mesophases. In particular, we examined the effect of sodium and potassium phosphate salts and the detergent β-octylglucoside (βOG) over a wide range of compositions relevant for the crystallization of membrane proteins in lipidic mesophases. We studied two types of systems: 1), ternary mixtures of MO with salt solutions above the hydration boundary; and 2), quaternary mixtures of MO with βOG and salt solutions over a wide range of hydration conditions. All quaternary mixtures showed highly regular lyotropic phase behavior with the same sequence of phases (Lα, Ia3d, and Pn3m) as MO/water mixtures at similar temperatures. The effects of additives in quaternary systems agreed qualitatively with those found in ternary mixtures in which only one additive is present. However, quantitative differences in the effects of additives on the lattice parameters of fully hydrated mesophases were found between ternary and quaternary mixtures. We discuss the implications of these findings for mechanistic investigations of membrane protein crystallization in lipidic mesophases and for studies of the suitability of precipitants for mesophase-based crystallization methods.

Using macromolecular-crystallography beamline and microfluidic platform for small-angle diffraction studies of lipidic matrices for membrane-protein crystallization.

Macromolecular-crystallography (MX) beamlines routinely provide a possibility to change X-ray beam energy, focus the beam to a size of tens of microns, align a sample on a microdiffractometer using on-axis video microscope, and collect data with an area-detector positioned in three dimensions. These capabilities allow for running complementary measurements of small-angle X-ray scattering and diffraction (SAXS) at the same beamline with such additions to the standard MX setup as a vacuum path between the sample and the detector, a modified beam stop, and a custom sample cell. On the 21-ID-D MX beamline at the Advanced Photon Source we attach a vacuum flight tube to the area detector support and use the support motion for aligning a beam stop built into the rear end of the flight tube. At 8 KeV energy and 1 m sample-to-detector distance we can achieve a small-angle resolution of 0.01A-1 in the reciprocal space. Measuring SAXS with this setup, we have studied phase diagrams of lipidic mesophases used as matrices for membrane-protein crystallization. The outcome of crystallization trials is significantly affected by the structure of the lipidic mesophases, which is determined by the composition of the crystallization mixture. We use a microfluidic chip for the mesophase formulation and in situ SAXS data collection. Using the MX beamline and the microfluidic platform we have demonstrated the viability of the high-throughput SAXS studies facilitating screening of lipidic matrices for membrane-protein crystallization.