Mass spectrometry-based protein footprinting for higher-order structure analysis: fundamentals and applications

XR Liu, MM Zhang, ML Gross - Chemical reviews, 2020 - ACS Publications
Proteins adopt different higher-order structures (HOS) to enable their unique biological
functions. Understanding the complexities of protein higher-order structures and dynamics …

Hydroxyl radical protein footprinting: a mass spectrometry-based structural method for studying the higher order structure of proteins

A McKenzie-Coe, NS Montes, LM Jones - Chemical reviews, 2021 - ACS Publications
Hydroxyl radical protein footprinting (HRPF) coupled to mass spectrometry has been
successfully used to investigate a plethora of protein-related questions. The method, which …

Byonic: advanced peptide and protein identification software

M Bern, YJ Kil, C Becker - Current protocols in bioinformatics, 2012 - Wiley Online Library
Byonic is the name of a software package for peptide and protein identification by tandem
mass spectrometry. This software, which has only recently become commercially available …

Characterizing endogenous protein complexes with biological mass spectrometry

R Rogawski, M Sharon - Chemical reviews, 2021 - ACS Publications
Biological mass spectrometry (MS) encompasses a range of methods for characterizing
proteins and other biomolecules. MS is uniquely powerful for the structural analysis of …

[HTML][HTML] Mass spectrometry for the biophysical characterization of therapeutic monoclonal antibodies

H Zhang, W Cui, ML Gross - FEBS letters, 2014 - Elsevier
Monoclonal antibodies (mAbs) are powerful therapeutics, and their characterization has
drawn considerable attention and urgency. Unlike small-molecule drugs (150–600 Da) that …

Using mass spectrometry‐based methods to understand amyloid formation and inhibition of alpha‐synuclein and amyloid beta

WJ Wagner, ML Gross - Mass spectrometry reviews, 2024 - Wiley Online Library
Amyloid fibrils, insoluble β‐sheets structures that arise from protein misfolding, are
associated with several neurodegenerative disorders. Many small molecules have been …

Determination of the glycoprotein specificity of lectins on cell membranes through oxidative proteomics

Y Xie, Y Sheng, Q Li, S Ju, J Reyes, CB Lebrilla - Chemical science, 2020 - pubs.rsc.org
The cell membrane is composed of a network of glycoconjugates including glycoproteins
and glycolipids that presents a dense matrix of carbohydrates playing critical roles in many …

Fast photochemical oxidation of proteins maps the topology of intrinsic membrane proteins: light-harvesting complex 2 in a nanodisc

Y Lu, H Zhang, DM Niedzwiedzki, J Jiang… - Analytical …, 2016 - ACS Publications
Although membrane proteins are crucial participants in photosynthesis and other biological
processes, many lack high-resolution structures. Prior to achieving a high-resolution …

Fast photochemical oxidation of proteins for comparing structures of protein− ligand complexes: the calmodulin− peptide model system

H Zhang, BC Gau, LM Jones, I Vidavsky… - Analytical …, 2011 - ACS Publications
Fast photochemical oxidation of proteins (FPOP) is a mass spectrometry-based protein
footprinting method that modifies proteins on the microsecond time scale. Highly reactive• …

An automated liquid jet for fluorescence dosimetry and microsecond radiolytic labeling of proteins

M Rosi, B Russell, LG Kristensen, ER Farquhar… - Communications …, 2022 - nature.com
X-ray radiolytic labeling uses broadband X-rays for in situ hydroxyl radical labeling to map
protein interactions and conformation. High flux density beams are essential to overcome …