Watching proteins wiggle: mapping structures with two-dimensional infrared spectroscopy

A Ghosh, JS Ostrander, MT Zanni - Chemical reviews, 2017 - ACS Publications
Proteins exhibit structural fluctuations over decades of time scales. From the picosecond
side chain motions to aggregates that form over the course of minutes, characterizing protein …

Infrared probes for studying the structure and dynamics of biomolecules

H Kim, M Cho - Chemical reviews, 2013 - ACS Publications
The first step toward understanding most of the chemical and biological processes in
condensed phases is to accurately describe solute− solvent interaction energy and to …

Site-specific infrared probes of proteins

J Ma, IM Pazos, W Zhang, RM Culik… - Annual review of …, 2015 - annualreviews.org
Infrared spectroscopy has played an instrumental role in the study of a wide variety of
biological questions. However, in many cases, it is impossible or difficult to rely on the …

Enzymatic transition states and dynamic motion in barrier crossing

SD Schwartz, VL Schramm - Nature chemical biology, 2009 - nature.com
What are the atomic motions at enzymatic catalytic sites on the timescale of chemical
change? Combined experimental and computational chemistry approaches take advantage …

Transparent window vibrational probes for the characterization of proteins with high structural and temporal resolution

R Adhikary, J Zimmermann, FE Romesberg - Chemical reviews, 2017 - ACS Publications
Vibrational spectroscopy provides a direct route to the physicochemical characterization of
molecules. While both IR and Raman spectroscopy have been used for decades to provide …

A biophysical perspective on enzyme catalysis

PK Agarwal - Biochemistry, 2018 - ACS Publications
Even after a century of investigation, our understanding of how enzymes work remains far
from complete. In particular, several factors that enable enzymes to achieve high catalytic …

Nitrile groups as vibrational probes of biomolecular structure and dynamics: an overview

BA Lindquist, KE Furse, SA Corcelli - Physical chemistry chemical …, 2009 - pubs.rsc.org
This paper presents an overview of recent experiments and theoretical developments aimed
at using vibrational spectroscopy to understand the structure and dynamics of nitrile-labeled …

Structural and Kinetic Studies of Formate Dehydrogenase from Candida boidinii

Q Guo, L Gakhar, K Wickersham, K Francis… - Biochemistry, 2016 - ACS Publications
The structure of formate dehydrogenase from Candida boidinii (CbFDH) is of both academic
and practical interests. First, this enzyme represents a unique model system for studies on …

Coherent multidimensional vibrational spectroscopy of biomolecules: Concepts, simulations, and challenges

W Zhuang, T Hayashi… - Angewandte Chemie …, 2009 - Wiley Online Library
Good vibrations: The vibrational response of complex molecules to sequences of infrared
pulses provides novel femtosecond snapshots of their structure and dynamics. This …

A 100 kHz pulse shaping 2D-IR spectrometer based on dual Yb: KGW amplifiers

PM Donaldson, GM Greetham, DJ Shaw… - The Journal of …, 2018 - ACS Publications
A high-speed, high-sensitivity and compact two-dimensional infrared (2D-IR) spectrometer
based on 100 kHz Yb: KGW regenerative amplifier technology is described and …