Joost Snijder

The paper determines the structure of norovirus NS3 and proposes it functions as an RNA translocase.

borgonovo improves protein sequence accuracy from tandem mass spectra by consensus assembly of redundant de novo peptide reads, achieving 0.87 mean fixed-window identity on therapeutic antibodies.

This study presents cryo-EM structures of cetacean coronavirus S proteins, revealing unique structural features and glycosylation patterns that highlight structural plasticity and host adaptation.

This study determines the structure of SARS-CoV-2 spike in complex with contactin 1 and quantifies their interaction, revealing new insights into viral neurotropism.

This study identifies cyclin-dependent kinases as key drivers of Ebola virus replication and transcription through proteomic analysis of host cell remodeling.

This study investigates how glycosylation of herpesvirus gB affects its interaction with co-receptors, revealing differences in binding specificity among HSV-1, HSV-2, and VZV.

This study examines how glycan evolution in H3 hemagglutinin affects antigenicity and immunogenicity, showing reduced antibody binding and shifted immune response.

The paper introduces a universal tool for annotating peptide spectra in proteomics, supporting various fragmentation methods and modifications.

This study designs and tests a stabilized full-length measles fusion protein antigen that induces strong neutralizing antibodies and protects against viral challenge in a cotton rat model.

This study determines the epitope of the postfusion-specific antibody 131-2a against RSV-F using mass spectrometry, revealing the structural basis for its specificity.

This paper introduces HTA-proteases for de novo antibody sequencing, achieving higher peptide read coverage and accuracy compared to trypsin or chymotrypsin.

The paper evaluates using cryoEM and mass spectrometry with a deep-learning tool to sequence antibodies and map epitopes from convalescent serum, showing 80-90% accuracy in variable domain sequencing.

The paper improves the accuracy of antibody sequence reconstruction from bottom-up proteomics data by addressing mass coincidence errors in de novo sequencing.

The paper determines the atomic structure of the FLAG peptide bound to anti-FLAG M2 Fab, identifies key interactions, and proposes a shorter FLAG-tag variant with equivalent binding.

The paper introduces Stitch, a software tool for mapping proteomic short reads to templates to sequence monoclonal and profile polyclonal antibodies with high accuracy.

The paper demonstrates that fully glycosylated trimeric RBD proteins of SARS-CoV-2 bind more effectively to ACE2 compared to monomeric or immaturely glycosylated variants.

The paper demonstrates the use of bacterial encapsulins in eukaryotic cells to create nanocompartments for localized enzymatic reactions and multiscale molecular imaging.