Ultrafast 2DIR probe of a host-guest inclusion complex: structural and dynamical constraints of nanoconfinement.

Two-dimensional infrared (2DIR) spectroscopy is used to study the influence of nanoconfinement on the spectral diffusion dynamics of cyclopentadienyl manganese tricarbonyl (CpMn(CO)3, CMT) free in solution and confined in the cavity of ß-cyclodextrin. Contrary to the reorientation correlation function of the solvent molecules, determined through molecular dynamics simulations, measurements in three different solvents indicate that CMT confined in ß-cyclodextrin undergoes spectral diffusion that is faster than free CMT. To account for this discrepancy, we propose that spectral diffusion time scales contain a dynamical contribution that is dependent on the effective size of the conformational space presented by the solvation environment. This solvation state space size is related to the number of participating solvent molecules, which in turn is proportional to the solvent accessible surface area (SASA). We test the role of the number of participating solvent molecules using a simple Gaussian-Markov simulation and find that an increase in the number of participating solvent molecules indeed slows the time required to search the available conformational space. Finally, we test this dependence by comparing the spectral diffusion of a previously studied manganese carbonyl, dimanganese decacarbonyl (Mn2(CO)10, DMDC), to CMT and find that DMDC, which has a larger SASA, exhibits slower spectral diffusion. The experimental observations and the supporting simplistic solvation model suggest that vibrational probe molecules, such as CMT, might be able to function as sensors of conformational entropy.

Improvement of a potential anthrax therapeutic by computational protein design.

Past anthrax attacks in the United States have highlighted the need for improved measures against bioweapons. The virulence of anthrax stems from the shielding properties of the Bacillus anthracis poly-γ-d-glutamic acid capsule. In the presence of excess CapD, a B. anthracis γ-glutamyl transpeptidase, the protective capsule is degraded, and the immune system can successfully combat infection. Although CapD shows promise as a next generation protein therapeutic against anthrax, improvements in production, stability, and therapeutic formulation are needed. In this study, we addressed several of these problems through computational protein engineering techniques. We show that circular permutation of CapD improved production properties and dramatically increased kinetic thermostability. At 45 °C, CapD was completely inactive after 5 min, but circularly permuted CapD remained almost entirely active after 30 min. In addition, we identify an amino acid substitution that dramatically decreased transpeptidation activity but not hydrolysis. Subsequently, we show that this mutant had a diminished capsule degradation activity, suggesting that CapD catalyzes capsule degradation through a transpeptidation reaction with endogenous amino acids and peptides in serum rather than hydrolysis.

Ultrafast 2D-IR and simulation investigations of preferential solvation and cosolvent exchange dynamics.

Using a derivative of the vitamin biotin labeled with a transition-metal carbonyl vibrational probe in a series of aqueous N,N-dimethylformamide (DMF) solutions, we observe a striking slowdown in spectral diffusion dynamics with decreased DMF concentration. Equilibrium solvation dynamics, measured with the rapidly acquired spectral diffusion (RASD) technique, a variant of heterodyne-detected photon-echo peak shift experiments, range from 1 ps in neat DMF to ∼3 ps in 0.07 mole fraction DMF/water solution. Molecular dynamics simulations of the biotin-metal carbonyl solute in explicit aqueous DMF solutions show marked preferential solvation by DMF, which becomes more pronounced at lower DMF concentrations. The simulations and the experimental data are consistent with an interpretation where the slowdown in spectral diffusion is due to solvent exchange involving distinct cosolvent species. A simple two-component model reproduces the observed spectral dynamics as well as the DMF concentration dependence, enabling the extraction of the solvent exchange time scale of 8 ps. This time scale corresponds to the diffusive motion of a few Å, consistent with a solvent-exchange mechanism. Unlike most previous studies of solvation dynamics in binary mixtures of polar solvents, our work highlights the ability of vibrational probes to sense solvent exchange as a new, slow component in the spectral diffusion dynamics.

Site-specific measurements of lipid membrane interfacial water dynamics with multidimensional infrared spectroscopy.

One route to accessing site-specific dynamical information available with ultrafast multidimensional infrared spectroscopy is the development of robust and versatile vibrational probes. Here we synthesize and characterize a vibrationally labeled cholesterol derivative, (cholesteryl benzoate) chromium tricarbonyl, to probe model lipid membranes, focusing specifically on the membrane-water interface. Utilizing FTIR and polarized-ATR spectroscopies, we determine the location of the chromium tricarbonyl motif to be situated at the water-membrane interface with an orientation of 46 ± 2° relative to the vector normal to the membrane surface. We test the dynamical sensitivity of the (cholesteryl benzoate) chromium tricarbonyl label with two different nonlinear infrared spectroscopy methods, both of which show that the probe is well-suited to the study of membrane dynamics as well as the dynamics of water at the membrane interface. The metal carbonyl vibrational probe located at the surface of a bicelle exhibits spectral diffusion dynamics induced by membrane hydration water that is roughly three times slower than observed using a nearly identical vibrational probe in bulk water.