Richard A. Scheltema

This study presents an optimized phosphoproteomics workflow using SP3 beads with improved phosphopeptide identification and detection of multiply phosphorylated peptides in HEK-293T cells.

The paper identifies oxygen-induced tubular nanocompartments in Pyrococcus furiosus using proteomics and cryo-EM, revealing their structure and role in ROS protection.

This paper presents a fast and accurate method for detecting disulfide bridges in proteins using mass spectrometry with optimized sample preparation and data analysis.

The paper uses AlphaFold2 to predict structures for 65,484 human protein interactions, identifying high confidence models and disease-related mutations.

A ChimeraX bundle loads crosslinking mass spectrometry hits from several search engines, draws the distance constraints on structures, filters them by replicate, and feeds HADDOCK.

The paper identifies five interaction regions between Notch1 and Jagged1 using XL-MS and SAXS, revealing a backfolded architecture that redefines the activation mechanism of Notch-Jagged signaling.

This paper summarizes current XL-MS practices, compares strategies, and proposes common protocols to establish best practice guidelines for accurate and reproducible results.