Matteo Dal Peraro

Sub-Nanomolar Detection and Discrimination of Microcystin Congeners Using Aerolysin Nanopores

This study demonstrates the ability to detect and discriminate microcystin congeners at sub-nanomolar concentrations using aerolysin nanopores, with applications for environmental monitoring.

The luminal and cytosolic domains of CLIMP-63 cooperate to set ER sheet width

This study shows that CLIMP-63's luminal domain forms flexible trimers and its cytosolic tail mediates clustering, together determining ER sheet width.

Molecular Regulation and Physiological Role of 1 GOLPH3-mediated Golgi retention

This study investigates the role of GOLPH3 in Golgi retention and trafficking, showing its regulation by S-acylation and its impact on glycosylation and development.

Redox-regulated cysteine acylation governs β-lactam sensing by the Vibrio histidine kinase VbrK

This study reveals how β-lactam antibiotics interact with the histidine kinase VbrK through redox-dependent cysteine acylation, enabling bacterial resistance.

Lumen charge governs gated ion transport in β-barrel nanopores

This study identifies and characterizes nonlinear ion transport phenomena in β-barrel nanopores, linking lumen charge distribution to open-pore rectification and gating.

Cardiolipin dynamics promote membrane remodeling by mitochondrial OPA1

This study investigates how cardiolipin dynamics influence mitochondrial membrane remodeling via OPA1 interactions using molecular dynamics and cryoEM.

Wide-field fluorescence lifetime imaging of single molecules with a gated single-photon camera

This paper develops a high-throughput single-molecule FLIM technique using a time-gated single-photon camera, achieving precise lifetime measurements with spatial multiplexing of over 3000 molecules.

Exploring new nanopore sensors from the aerolysin family

The paper explores new nanopore sensors from the aerolysin family by analyzing structure and sensing capabilities of three family members, finding ETX can translocate ssDNA with higher sensitivity than aerolysin.

Context-aware geometric deep learning for RNA sequence design

This paper introduces RISoTTo, a geometric deep learning method for RNA sequence design that incorporates molecular context, showing improved accuracy and binding affinity in in silico tests.

Aerolysin nanopore structure revealed at high resolution in lipid environment

The paper presents high-resolution cryo-EM structures of aerolysin pre-pore and pore in a membrane-like environment, revealing key interactions and constriction rings relevant for nanopore sensing.

Enterovirus A71 adaptation to heparan sulfate comes with capsid stability tradeoff

This study shows that EV-A71 adapts to heparan sulfate by losing pH-dependent uncoating, which compromises capsid stability and affects viral fitness in vivo.

OXA beta-lactamases from Acinetobacter spp. are membrane-bound and secreted into outer membrane vesicles

This paper identifies membrane-bound OXA beta-lactamases in Acinetobacter spp. and shows they are secreted into outer membrane vesicles, contributing to antimicrobial resistance.

Protein language models learn evolutionary statistics of interacting sequence motifs

The paper investigates how ESM-2, a protein language model, predicts protein contacts by analyzing coevolving residue statistics and local sequence context.

A look beyond the QR code of SNARE proteins

The paper investigates the structural arrangement of SNARE proteins in QabcR complexes and shows that structural exchange is tolerated but some non-cognate exchanges lead to imbalances.

G-PLIP: Knowledge graph neural network for structure-free protein-ligand bioactivity prediction

The paper introduces a graph neural network for predicting protein-ligand interactions without structural data, achieving competitive performance using representation learning.

Differential Effects of Posttranslational Modifications on the Membrane Interaction of Huntingtin Protein

This study investigates how posttranslational modifications affect the membrane interaction and helical structure of the N-terminal fragment of the huntingtin protein.

Missense mutations in CMS22 patients reveal that PREPL has both enzymatic and non-enzymatic functions

The paper investigates missense mutations in PREPL in CMS22 patients, showing they affect non-hydrolytic functions without impairing hydrolase activity.

HandMol: Coupling WebXR, AI and HCI technologies for Immersive, Natural, Collaborative and Inclusive Molecular Modeling

HandMol provides an immersive, collaborative molecular modeling tool using WebXR, AI, and HCI technologies, enabling natural interactions and real-time collaboration without specialized software.

MaD: Macromolecular Descriptors for Integrative Dynamic Modeling Supported by Cryo-EM Data

MaD improves integrative modeling of large flexible macromolecular complexes by using conformation-invariant descriptors from cryo-EM data and molecular simulations.

PeSTo: parameter-free geometric deep learning for accurate prediction of protein interacting interfaces

PeSTo predicts protein interacting interfaces using a parameter-free geometric transformer that acts on atom labels, outperforming existing methods and enabling analysis of dynamic structural data.

Specific protein-membrane interactions promote the export of metallo-β-lactamases via outer membrane vesicles

The paper shows that specific protein-membrane interactions enhance the export of metallo-β-lactamases into outer membrane vesicles in Gram-negative bacteria.

The polyQ expansion modulates the configuration and phosphorylation of huntingtin

The paper examines how polyQ expansion affects HTT structure and phosphorylation, showing structural changes and altered phosphorylation patterns that influence HTT activity.