Quantitative interactome analysis with chemical cross-linking and mass spectrometry

HH Wippel, JD Chavez, X Tang, JE Bruce - Current opinion in chemical …, 2022 - Elsevier
Structural plasticity and dynamic protein–protein interactions are critical determinants of
protein function within living systems. Quantitative chemical cross-linking with mass …

Protein structure prediction with mass spectrometry data

SE Biehn, S Lindert - Annual review of physical chemistry, 2022 - annualreviews.org
Knowledge of protein structure is crucial to our understanding of biological function and is
routinely used in drug discovery. High-resolution techniques to determine the three …

In-cell labeling and mass spectrometry for systems-level structural biology

JD Chavez, HH Wippel, X Tang, A Keller… - Chemical …, 2021 - ACS Publications
Biological systems have evolved to utilize proteins to accomplish nearly all functional roles
needed to sustain life. A majority of biological functions occur within the crowded …

Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics

C Gueto-Tettay, D Tang, L Happonen… - PLoS Computational …, 2023 - journals.plos.org
Generating and analyzing overlapping peptides through multienzymatic digestion is an
efficient procedure for de novo protein using from bottom-up mass spectrometry (MS) …

Probing Protein Structural Changes in Alzheimer's Disease via Quantitative Cross-linking Mass Spectrometry

Z Zhu, X Zhong, B Wang, H Lu, L Li - Analytical chemistry, 2024 - ACS Publications
Alzheimer's disease (AD) is a progressive neurological disorder featuring abnormal protein
aggregation in the brain, including the pathological hallmarks of amyloid plaques and …

Mass Spectrometry Structural Proteomics Enabled by Limited Proteolysis and Cross‐Linking

H Lu, Z Zhu, L Fields, H Zhang… - Mass Spectrometry …, 2024 - Wiley Online Library
The exploration of protein structure and function stands at the forefront of life science and
represents an ever‐expanding focus in the development of proteomics. As mass …

Proteomic approaches to unravel mechanisms of antibiotic resistance and immune evasion of bacterial pathogens

E Torres-Sangiao, AD Giddey, C Leal Rodriguez… - Frontiers in …, 2022 - frontiersin.org
The profound effects of and distress caused by the global COVID-19 pandemic highlighted
what has been known in the health sciences a long time ago: that bacteria, fungi, viruses …

Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data

H Khakzad, L Happonen, J Malmström… - …, 2021 - academic.oup.com
Protein–protein interactions (PPIs) are central in many biological processes but difficult to
characterize, especially in complex, unfractionated samples. Chemical cross-linking …

The Great Escape-Investigating Complement Evasion Mechanisms in Pathogenic Bacteria

M Magda - 2024 - portal.research.lu.se
The complement system, a crucial part of the innate immune system, protects the human
body during bacterial infections. Complement comprises three pathways, classical, lectin …

[PDF][PDF] Quaternary structure modeling through chemical cross-linking mass spectrometry: Extending tx-ms jupyter reports

H Khakzad, S Vermeul, L Malmström - Journal of visualized …, 2021 - hal.science
Protein-protein interactions can be challenging to study yet provide insights into how
biological systems function. Targeted cross-linking mass spectrometry (TX-MS), a method …