Leveraging crosslinking mass spectrometry in structural and cell biology

A Graziadei, J Rappsilber - Structure, 2022 - cell.com
Crosslinking mass spectrometry (crosslinking-MS) is a versatile tool providing structural
insights into protein conformation and protein-protein interactions. Its medium-resolution …

Protein structure prediction with in-cell photo-crosslinking mass spectrometry and deep learning

K Stahl, A Graziadei, T Dau, O Brock… - Nature …, 2023 - nature.com
While AlphaFold2 can predict accurate protein structures from the primary sequence,
challenges remain for proteins that undergo conformational changes or for which few …

Reliable identification of protein-protein interactions by crosslinking mass spectrometry

S Lenz, LR Sinn, FJ O'Reilly, L Fischer… - Nature …, 2021 - nature.com
Protein-protein interactions govern most cellular pathways and processes, and multiple
technologies have emerged to systematically map them. Assessing the error of interaction …

Cross-linking mass spectrometry uncovers protein interactions and functional assemblies in synaptic vesicle membranes

S Wittig, M Ganzella, M Barth, S Kostmann… - Nature …, 2021 - nature.com
Synaptic vesicles are storage organelles for neurotransmitters. They pass through a
trafficking cycle and fuse with the pre-synaptic membrane when an action potential arrives at …

In situ structural restraints from cross-linking mass spectrometry in human mitochondria

PSJ Ryl, M Bohlke-Schneider, S Lenz… - Journal of Proteome …, 2019 - ACS Publications
The field of structural biology is increasingly focusing on studying proteins in situ, ie, in their
greater biological context. Cross-linking mass spectrometry (CLMS) is contributing to this …

Retention time prediction using neural networks increases identifications in crosslinking mass spectrometry

SH Giese, LR Sinn, F Wegner, J Rappsilber - Nature communications, 2021 - nature.com
Crosslinking mass spectrometry has developed into a robust technique that is increasingly
used to investigate the interactomes of organelles and cells. However, the incomplete and …

Molecular basis of mRNA delivery to the bacterial ribosome

MW Webster, A Chauvier, H Rahil, A Graziadei… - Science, 2024 - science.org
Protein synthesis begins with the formation of a ribosome-messenger RNA (mRNA)
complex. In bacteria, the small ribosomal subunit (30 S) is recruited to many mRNAs through …

Improved peptide backbone fragmentation is the primary advantage of MS-cleavable crosslinkers

L Kolbowski, S Lenz, L Fischer, LR Sinn… - Analytical …, 2022 - ACS Publications
Proteome-wide crosslinking mass spectrometry studies have coincided with the advent of
mass spectrometry (MS)-cleavable crosslinkers that can reveal the individual masses of the …

Liposomes as Carriers of Membrane‐Associated Proteins and Peptides for Mass Spectrometric Analysis

M Frick, C Schwieger, C Schmidt - … Chemie International Edition, 2021 - Wiley Online Library
Membrane proteins are key players of the cell. Their structure and the interactions they form
with their lipid environment are required to understand their function. Here we explore …

Leveraging parameter dependencies in high-field asymmetric waveform ion-mobility spectrometry and size exclusion chromatography for proteome-wide cross-linking …

LR Sinn, SH Giese, M Stuiver, J Rappsilber - Analytical Chemistry, 2022 - ACS Publications
Ion-mobility spectrometry shows great promise to tackle analytically challenging research
questions by adding another separation dimension to liquid chromatography–mass …