Successful enzyme catalysis depends on many noncovalent interactions between the enzyme, cofactors, and substrate that poise the system to access a productive transition state. Motions on a variety of timescales contribute to this, but some controversy exists surrounding the role of ultrafast dynamics on catalysis. Site-specific 2D IR spectroscopy using probes of vibrational dynamics provides the opportunity to explore ultrafast motions in an enzyme active site owing to the technique’s spatial and temporal resolution. In this work, a series of aryl-azide vibrational labels were assessed using a variety of 2D IR techniques for their sensitivity to solvent and energy transfer processes, and their ability to be adapted to experiments in biomacromolecules. One of these labels, 4-azido-N-phenylmaleimide, is a substrate analog for the promiscuous ene-reductase from Pyrococcus horikoshii (PhENR). The label was covalently attached in two orientations in the enzyme active site, occupying the same position as native substrates based on X-ray crystallography and molecular dynamics simulations. FTIR and 2D IR spectroscopy were used to identify close-lying conformational states based on the strong anharmonic coupling of the label, revealing that the active site itself modulates the probe’s internal vibrational coupling. More commonly used analogous aryl-nitrile labels, however, were not sensitive to such small structural and lineshape changes. This demonstrates the importance of thoughtful label design to maximize the amount of information that can be gleaned from 2D IR studies. Using the methods herein—both spectroscopic and biochemical—provides a strategy for probing ultrafast motions that could possibly be catalytically relevant.

Terahertz (THz) spectroscopy is a powerful tool that uses ultrashort pulses of light to study the properties of materials on picosecond time scales. THz light can be generated through a variety of methods. In our lab, we generate THz through the process of optical rectification in nonlinear optical (NLO) organic crystals. THz light can be used to study several phenomena in materials, such as spin precession, electron acceleration, vibrational and rotational motion. The work presented in this dissertation is divided into two parts: (1) the generation of THz light and (2) applications of THz light. The first portion of this work shows how THz light is generated, with an emphasis on the generation through optical rectification. We also show how to improve the generation of THz light by creating heterogenous multi-layer structures with yellow organic THz generation crystals. Additionally, we show that crystals used for THz generation can also be used to generate second-harmonic light. In the second half of this work, we show that THz light can be used to study the vibrational motion of molecular systems. We model how resonant vibrational modes in a fluorobenzene molecule can be excited with a multi-THz pump to transfer energy anharmonically to non-resonant modes. We also show that we can use two-dimensional (2D) THz spectroscopy to excite infrared-active vibrational modes and probe Raman-active modes in a CdWO4 crystal to obtain a nonlinear response. We show that the nonlinear response is due to anharmonic coupling between vibrational modes and we can quantify the relative strengths of these anharmonic couplings, which previously was only accessible through first-principles calculations.