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Matteo Dal Peraro

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Publications associées (149)

MoleculARweb: A Web Site for Chemistry and Structural Biology Education through Interactive Augmented Reality out of the Box in Commodity Devices

Matteo Dal Peraro, Luciano Andres Abriata, Lucien Fabrice Krapp, Fabio Jose Cortes Rodriguez

Augmented/virtual realities (ARs/VRs) promise to revolutionize STEM education. However, most easy-to-use tools are limited to static visualizations, which limits the approachable content, whereas more interactive and dynamic alternatives require costly har ...

AMER CHEMICAL SOC2021

State-of-the-art web services for de novo protein structure prediction

Matteo Dal Peraro

Residue coevolution estimations coupled to machine learning methods are revolutionizing the ability of protein structure prediction approaches to model proteins that lack clear homologous templates in the Protein Data Bank (PDB). This has been patent in th ...

OXFORD UNIV PRESS2021

Prolyl endopeptidase-like is a (thio)esterase involved in mitochondrial respiratory chain function

Matteo Dal Peraro, Maria Josefina Marcaida Lopez

Deficiency of the serine hydrolase prolyl endopeptidase-like (PREPL) causes a recessive metabolic disorder characterized by neonatal hypotonia, feeding difficulties, and growth hormone deficiency. The pathophysiology of PREPL deficiency and the physiologic ...

CELL PRESS2021

Extensive tissue-specific expression variation and novel regulators underlying circadian behavior

Michael Vincent Frochaux, Bart Deplancke, Matteo Dal Peraro, Antonio Carlos Alves Meireles Filho, Roel Paulus Josephus Bevers, Alessio Prunotto, Julie Marie Russeil, Virginie Sandra Braman, Vincent Roland Julien Gardeux, Maria Litovchenko, Brian Dennis Hollis

Natural genetic variation affects circadian rhythms across the evolutionary tree, but the underlying molecular mechanisms are poorly understood. We investigated population-level, molecular circadian clock variation by generating >700 tissue-specific transc ...

2021

Structural basis for recognition of bacterial cell wall teichoic acid by pseudo-symmetric SH3b-like repeats of a viral peptidoglycan hydrolase

Matteo Dal Peraro, Alessio Prunotto

Endolysins are bacteriophage-encoded peptidoglycan hydrolases targeting the cell wall of host bacteria via their cell wall-binding domains (CBDs). The molecular basis for selective recognition of surface carbohydrate ligands by CBDs remains elusive. Here, ...

2021

Decoding Digital Information Stored in Polymer by Nanopore

Aleksandra Radenovic, Matteo Dal Peraro, Lucien Fabrice Krapp, Chan Cao

CELL PRESS2021

Btk SH2-kinase interface is critical for allosteric kinase activation and its targeting inhibits B-cell neoplasms

Florence Pojer, Matteo Dal Peraro, Oliver Hantschel, Sandrine Madeleine Suzanne Georgeon, Allan Joaquim Lamontanara, Tim Kükenshöner, Maria Josefina Marcaida Lopez, Daniel Pereira Duarte, Grégory La Sala

Bruton's tyrosine kinase (Btk) is critical for B-cell maturation and activation. Btk loss-of-function mutations cause human X-linked agammaglobulinemia (XLA). In contrast, Btk signaling sustains growth of several B-cell neoplasms which may be treated with ...

Nature Publishing Group2020

About the need to make computational models of biological macromolecules available and discoverable

Matteo Dal Peraro, Luciano Andres Abriata

OXFORD UNIV PRESS2020

The Polyglutamine Expansion at the N-Terminal of Huntingtin Protein Modulates the Dynamic Configuration and Phosphorylation of the C-Terminal HEAT Domain

Ruedi Aebersold, Matteo Dal Peraro, Giorgio Elikem Tamo, Maria Josefina Marcaida Lopez

The polyQ expansion in huntingtin protein (HTT) is the prime cause of Huntington's disease (HD). The recent cryoelectron microscopy (cryo-EM) structure of HTT-HAP40 complex provided the structural information on its HEAT-repeat domains. Here, we present an ...

CELL PRESS2020

Salt enhances the thermostability of enteroviruses by stabilizing capsid protein interfaces

Tamar Kohn, Matteo Dal Peraro, Simon Meister, Alessio Prunotto

Enteroviruses are common agents of infectious disease that are spread by the fecal-oral route. They are readily inactivated by mild heat, which causes the viral capsid to disintegrate or undergo conformational change. While beneficial for the thermal treat ...

American Society for Microbiology2020

Aerolysin nanopores decode digital information stored in tailored macromolecular analytes

Aleksandra Radenovic, Matteo Dal Peraro, Lucien Fabrice Krapp, Nuria Cirauqui Diaz, Chan Cao

Digital data storage is a growing need for our society and finding alternative solutions than those based on silicon or magnetic tapes is a challenge in the era of “big data.” The recent development of polymers that can store information at the molecular l ...

2020

Molecular Bases of the Membrane Association Mechanism Potentiating Antibiotic Resistance by New Delhi Metallo-beta-lactamase 1

Matteo Dal Peraro, Alessio Prunotto, Guillermo Bahr

Resistance to last-resort carbapenem antibiotics is an increasing threat to human health, as it critically limits therapeutic options. Metallo-beta-lactamases (MBLs) are the largest family of carbapenemases, enzymes that inactivate these drugs. Among MBLs, ...

AMER CHEMICAL SOC2020

Editorial: Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations

Matteo Dal Peraro, Giulia Palermo

FRONTIERS MEDIA SA2020

Ligand Binding to the Collagen VI Receptor Triggers a Talin-to-RhoA Switch that Regulates Receptor Endocytosis

Béatrice Kunz, Françoise Gisou van der Goot Grunberg, Laurence Gouzi Abrami, Matteo Dal Peraro, Shixu Yan, Luciano Andres Abriata

Capillary morphogenesis gene 2 (CMG2/ANTXR2) is a cell surface receptor for both collagen VI and anthrax toxin. Biallelic loss-of-function mutations in CMG2 lead to a severe condition, hyaline fibromatosis syndrome (HFS). We have here dissected a network o ...

Cell Press - Elsevier2020

The Human RNA Helicase DDX21 Presents a Dimerization Interface Necessary for Helicase Activity

Didier Trono, Annamaria Kauzlaric, Matteo Dal Peraro, Suliana Manley, Alice Duperrex, Maria Josefina Marcaida Lopez, Jenny Sülzle

Members of the DEAD-box helicase family are involved in all fundamental processes of RNA metabolism, and as such, their malfunction is associated with various diseases. Currently, whether and how oligomerization impacts their biochemical and biological fun ...

2020

Will Cryo-Electron Microscopy Shift the Current Paradigm in Protein Structure Prediction?

Matteo Dal Peraro, Luciano Andres Abriata

Protein dynamics is undoubtedly a pervasive ingredient in all biological functions. However, structural biology has been strongly driven by a static-centered view of protein architecture. We argue that the recent advances of cryo-electron microscopy (EM) h ...

AMER CHEMICAL SOC2020

KAP1 is an antiparallel dimer with a functional asymmetry

Didier Trono, Davide Demurtas, Matteo Dal Peraro, Louise Catherine Bryan, Beat Fierz, Pierre-Yves Joseph Laurent Helleboid, Alexandra Styliani Kalantzi, Giulia Fonti, Maria Josefina Marcaida Lopez

KAP1 (KRAB domain-associated protein 1) plays a fundamental role in regulating gene expression in mammalian cells by recruiting different transcription factors and altering the chromatin state. In doing so, KAP1 acts both as a platform for macromolecular i ...

Life Science Alliance, LLC2019

Molecular Simulations Give Insights into the NDM-1/Membrane Interaction that Causes Rise of a Super-Bacterium

Matteo Dal Peraro, Alessio Prunotto, Guillermo Bahr

CELL PRESS2019

Single-molecule sensing of peptides and nucleic acids by engineered aerolysin nanopores

Aleksandra Radenovic, Matteo Dal Peraro, Alice Duperrex, Nuria Cirauqui Diaz, Chan Cao, Elena Buglakova

Nanopore sensing is a powerful single-molecule approach for the detection of biomolecules. Recent studies have demonstrated that aerolysin is a promising candidate to improve the accuracy of DNA sequencing and to develop novel single-molecule proteomic str ...

Nature Research2019

An Isoprene Lipid-Binding Protein Promotes Eukaryotic Coenzyme Q Biosynthesis

Matteo Dal Peraro, Deniz Aydin

The biosynthesis of coenzyme Q presents a paradigm for how cells surmount hydrophobic barriers in lipid biology. In eukaryotes, CoQ precursors-among nature's most hydrophobic molecules-must somehow be presented to a series of enzymes peripherally associate ...

CELL PRESS2019

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