Ivan Ahel

DarHTG is a tripartite phage defence system for purine DNA base ADP-ribosylation

The paper describes DarHTG, a bacterial phage defense system that ADP-ribosylates double-stranded DNA using a helicase co-toxin, and identifies two subclasses with distinct target bases.

Near-Zero Missed Cleavages with a High-Fidelity Recombinant Arg-C Zero for Mass Spectrometry-Based Proteomics

This paper introduces Arg-C Zero, a high-fidelity protease with near-zero missed cleavages, demonstrating its utility in proteomics, especially for analyzing post-translational modifications.

Deciphering cytokine-driven ADP-ribosylation signaling networks via Af1521-based mass spectrometry analysis of labile Glu/Asp-linkages

The paper develops an MS-based workflow to detect Glu/Asp-ADPr modifications, identifies over 600 sites in cytokine-stimulated cells, and reveals residue-specific ADPr dynamics in immune signaling.

Assembly of two functionally-distinct protein import complexes in the outer membrane of plant chloroplasts

The paper characterizes two distinct TOC complexes in chloroplasts and non-photosynthetic plastids, revealing differences in receptor composition and Toc75's central role in assembly.

A FRET-based high-throughput screening assay for the discovery of Mycobacterium tuberculosis DNA ADP-ribosylglycohydrolase DarG inhibitors

This paper develops a FRET-based high-throughput screening assay to identify DarG inhibitors in M. tuberculosis and identifies pranlukast as a selective inhibitor.

Identification of RNF114 as ADPr-Ub reader through non-hydrolysable ubiquitinated ADP-ribose

The paper identifies RNF114 as a specific reader of ubiquitinated ADP-ribose using a chemoproteomics approach and validates its interaction with the modified molecule.

Targeting GOF p53 and c-MYC through LZK Inhibition or Degradation Suppresses Head and Neck Tumor Growth

This study identifies LZK as a therapeutic target in HNSCC by showing its regulation of c-MYC and GOF p53, and demonstrates PROTAC-mediated degradation as a potential treatment.

Ubiquitylation of nucleic acids by DELTEX ubiquitin E3 ligase DTX3L

This study shows that nucleic acids can be ubiquitylated by DTX3L, an E3 ligase, and this modification is reversible by DUBs like USP2 and SARS-CoV-2 PLpro.

Fragment-Based Hit Discovery via Unsupervised Learning of Fragment-Protein Complexes

This paper uses unsupervised machine learning to identify active fragments from crystallographic data, distinguishing them from inactive ones without activity data.

The regulatory landscape of the human HPF1- and ARH3-dependent ADP-ribosylome

The paper identifies ADP-ribosylation sites regulated by HPF1 and ARH3 using proteomics, revealing widespread mono-ADP-ribosylation and challenges existing assumptions about PARP1 target residues.