Spectral Similarity: Full-Wavelength Range Calibration of Circular Dichroism Spectroscopy.

Circular dichroism (CD) measurements help characterize optically active molecules and higher-order biomolecular structures. The harmonization of interlaboratory CD measurements requires minimizing measurement uncertainties and determinate errors. Most CD measurements utilize a single-wavelength intensity measurement at a spectral peak to calibrate the intensities of the ultraviolet wavelength range.

Solution Structures of Protective Antigen Proteins Using Small Angle Neutron Scattering and Protective Antigen 63 Ion Channel Formation Kinetics.

We are studying the structures of bacterial toxins that form ion channels and enable macromolecule transport across membranes. For example, the crystal structure of the α-hemolysin (α-HL) channel in its state was confirmed using neutron reflectometry (NR) with the protein reconstituted in membranes tethered to a solid support. This method, which provides sub-nanometer structural information, could also test putative structures of the protective antigen 63 (PA63) channel, locate where lethal factor and edema factor toxins (LF and EF, respectively) bind to it, and determine how certain small molecules can inhibit the interaction of LF and EF with the channel.

Ion and water transport reasonably involves rotation and pseudorotation: measurement and modeling the temperature dependence of small-angle neutron scattering from aqueous SrI.

X-ray and neutron scattering have provided insight into the short range (<8 Å) structures of ionic solutions for over a century. For longer distances, single scattering bands have, however, been seen. For the non-hydrolyzing salt SrI2 in aqueous (D2O) solution, a structure sufficient to scatter slow neutrons has been seen to persist down to a concentration of 0.

Why Proteins are Big: Length Scale Effects on Equilibria and Kinetics.

Proteins are polymers, and yet the language used in describing their thermodynamics and kinetics is most often that of small molecules. Using the terminology and mathematical descriptions of small molecules impedes understanding why proteins have evolved to be big in comparison. Many properties of the proteins should be interpreted as polymer behavior, and these arise because of the longer length scale of polymer dimensions.

Submultiple Data Collection to Explore Spectroscopic Instrument Instabilities Shows that Much of the "Noise" is not Stochastic.

As has long been understood, the noise on a spectrometric signal can be reduced by averaging over time, and the averaged noise is expected to decrease as t, the square root of the data collection time. However, with contemporary capability for fast data collection and storage, we can retain and access a great deal more information about a signal train than just its average over time. During the same collection time, we can record the signal averaged over much shorter, equal, fixed periods.

Heparin's solution structure determined by small-angle neutron scattering.

Heparin is a linear, anionic polysaccharide that is widely used as a clinical anticoagulant. Despite its discovery 100 years ago in 1916, the solution structure of heparin remains unknown. The solution shape of heparin has not previously been examined in water under a range of concentrations, and here is done so in D2 O solution using small-angle neutron scattering (SANS).

The relative diffusive transport rate of SrI2 in water changes over the nanometer length scale as measured by coherent quasielastic neutron scattering.

X-ray and neutron scattering have been used to provide insight into the structures of ionic solutions for over a century, but the probes have covered distances shorter than 8 Å. For the non-hydrolyzing salt SrI2 in aqueous solution, a locally ordered lattice of ions exists that scatters slow neutrons coherently down to at least 0.1 mol L(-1) concentration, where the measured average distance between scatterers is over 18 Å.

One-dimensional ionic self-assembly in a fluorous solution: the structure of tetra-n-butylammonium tetrakis[3,5-bis(perfluorohexyl)phenyl]borate in perfluoromethylcyclohexane by small-angle neutron scattering (SANS).

Fluorous liquids are the least polarizable condensed phases known, and their nonpolar members form solutions with conditions the closest to being in vacuo. A soluble salt consisting of a large fluorophilic anion, tetrakis[3,5-bis(perfluorohexyl)phenyl]borate, and its counterion, tetra-n-butylammonium, dissolved in perfluoromethylcyclohexane produces ionic solutions with extremely low conductivity. These solutions were subjected to small-angle neutron scattering (SANS) to ascertain the solute structure.

The solution structure of full-length dodecameric MCM by SANS and molecular modeling.

The solution structure of the full-length DNA helicase minichromosome maintenance protein from Methanothermobacter thermautotrophicus was determined by small-angle neutron scattering (SANS) data together with all-atom molecular modeling. The data were fit best with a dodecamer (dimer of hexamers). The 12 monomers were linked together by the B/C domains, and the adenosine triphosphatase (AAA+) catalytic regions were found to be freely movable in the full-length dodecamer both in the presence and absence of Mg(2+) and 50-meric single-stranded DNA (ssDNA).

Structure determination of functional membrane proteins using small-angle neutron scattering (sans) with small, mixed-lipid liposomes: native beef heart mitochondrial cytochrome c oxidase forms dimers.

The low-resolution three-dimensional structure of purified native beef heart mitochondrial cytochrome c oxidase (COX) in asolectin unilamellar liposomes has been measured by small-angle neutron scattering under the conditions where the protein remains fully functional. From a neutron scattering perspective, the use of mixed-lipid liposomes provided for a more homogeneous matrix than can be achieved using a single lipid. As a result, the measurements were able to be performed under conditions where the liposome scattering was essentially eliminated (contrast-matched conditions).

In-situ characterization of self-assembled monolayers of water-soluble oligo(ethylene oxide) compounds.

In-situ spectroscopic ellipsometry (SE) was utilized to examine the formation of the self-assembled monolayers (SAMs) of the water-soluble oligo(ethylene oxide) [OEO] disulfide [S(CH(2)CH(2)O)(6)CH(3)](2) {[S(EO)(6)](2)} and two analogous thiols - HS(CH(2)CH(2)O)(6)CH(3) {(EO)(6)} and HS(CH(2))(3)O(CH(2)CH(2)O)(5)CH(3) {C(3)(EO)(5)} - on Au from aqueous solutions. Kinetic data for all compounds follow simple Langmuirian models with the disulfide reaching a self-limiting final state (d=1.2nm) more rapidly than the full coverage final states of the thiol analogs (d=2.

Self-assembled monolayers of an oligo(ethylene oxide) disulfide and its corresponding thiol assembled from water: characterization and protein resistance.

Self-assembled monolayers (SAMs) of the disulfide [S(CH2CH2O)6CH3]2 ([S(EO)6]2) on Au from 95% ethanol and from 100% water are described. Spectroscopic ellipsometry and reflection-absorption infrared spectroscopy indicate that the [S(EO)6]2 films are similar to the disordered films of HS(CH2CH2O)6CH3 ((EO)6) and HS(CH2)3O(CH2CH2O)5CH3 (C3EO5) at their protein adsorption minima. The [S(EO)6]2 SAMs exhibit constant film thickness (d) of 1.

Single-molecule mass spectrometry in solution using a solitary nanopore.

We introduce a two-dimensional method for mass spectrometry in solution that is based on the interaction between a nanometer-scale pore and analytes. As an example, poly(ethylene glycol) molecules that enter a single alpha-hemolysin pore cause distinct mass-dependent conductance states with characteristic mean residence times. The conductance-based mass spectrum clearly resolves the repeat unit of ethylene glycol, and the mean residence time increases monotonically with the poly(ethylene glycol) mass.

Control of protein adsorption: molecular level structural and spatial variables.

The adsorption of fibrinogen (Fb) and bovine serum albumin onto polycrystalline Au coated with HS(CH2)3O(CH2CH2O)5CH3 was determined by surface plasmon resonance from bare Au (0% coverage) to the complete ( approximately 100% coverage) self-assembled monolayer (SAM). Both proteins exhibit similar adsorption curves with common onset ( approximately 60% coverage) and range ( approximately 60% to 80% coverage) of minimal protein adsorption. Reflection-absorption infrared spectroscopic data show that widespread order is not present in the films over this range of coverage, indicating loosely packed, bound oligomers that are uniformly distributed and fully screen the underlying substrate.