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Matteo Dal Peraro

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Publications associées (149)

Pore-forming toxins: ancient, but never really out of fashion

Françoise Gisou van der Goot Grunberg, Matteo Dal Peraro

Pore-forming toxins (PFTs) are virulence factors produced by many pathogenic bacteria and have long fascinated structural biologists, microbiologists and immunologists. Interestingly, pore-forming proteins with remarkably similar structures to PFTs are fou ...

Nature Publishing Group2016

New Insight into the Catalytic and Inhibition Mechanism of the Human Acyl Protein Thioesterase

Françoise Gisou van der Goot Grunberg, Patrick Alain Sandoz, Matteo Dal Peraro, Sylvia Ho, Martina Audagnotto, Nicole Andenmatten

Cell Press2016

Olfactory receptor pseudo-pseudogenes

Matteo Dal Peraro, Benoîte Bargeton

Oxford Univ Press2016

Detection and sequence/structure mapping of biophysical constraints to protein variation in saturated mutational libraries and protein sequence alignments with a dedicated server

Matteo Dal Peraro, Christophe Bovigny, Luciano Andres Abriata

Background: Protein variability can now be studied by measuring high-resolution tolerance-to-substitution maps and fitness landscapes in saturated mutational libraries. But these rich and expensive datasets are typically interpreted coarsely, restricting d ...

2016

Cerebellar Ataxia and Coenzyme Q Deficiency through Loss of Unorthodox Kinase Activity

Matteo Dal Peraro, Deniz Aydin, Xiao Guo

The UbiB protein kinase-like (PKL) family is widespread, comprising one-quarter of microbial PKLs and five human homologs, yet its biochemical activities remain obscure. COQ8A (ADCK3) is a mammalian UbiB protein associated with ubiquinone (CoQ) biosynthesi ...

Cell Press2016

Molecular Effects of Concentrated Solutes on Protein Hydration, Dynamics, and Electrostatics

Matteo Dal Peraro, Enrico Spiga, Luciano Andres Abriata

Most studies of protein structure and function are performed in dilute conditions, but proteins typically experience high solute concentrations in their physiological scenarios and biotechnological applications. High solute concentrations have well-known e ...

Cell Press2016

Cooperative motion of a key positively charged residue and metal ions for DNA replication catalyzed by human DNA Polymerase-eta

Matteo Dal Peraro, Vito Genna

Trans-lesion synthesis polymerases, like DNA Polymerase-eta (Pol-eta), are essential for cell survival. Pol-eta bypasses ultraviolet-induced DNA damages via a two-metal-ion mechanism that assures DNA strand elongation, with formation of the leaving group p ...

Oxford University Press (OUP)2016

Detection and sequence/structure mapping of biophysical constraints to protein variation in saturated mutational libraries and protein sequence alignments with a dedicated server(vol 1, 242, 2016)

Matteo Dal Peraro, Christophe Bovigny, Luciano Andres Abriata

2016

Effect of the Synaptic Plasma Membrane on the Stability of the Amyloid Precursor Protein Homodimer

Thomas Lemmin, Matteo Dal Peraro, Alessandro Barducci, Martina Audagnotto

The proteolytic cleavage of the transmembrane (TM) domain of the amyloid precursor protein (APP) releases amyloid-beta (A beta) peptides, which accumulation in the brain tissue is an early indicator of Alzheimer's disease. We used multiscale molecular dyna ...

Amer Chemical Soc2016

A rheostat mechanism governs the bifurcation of carbon flux in mycobacteria

John McKinney, Florence Pojer, Matteo Dal Peraro, Tarun Chopra, Paul Murima, Giulia Fonti

Fatty acid metabolism is an important feature of the pathogenicity of Mycobacterium tuberculosis during infection. Consumption of fatty acids requires regulation of carbon flux bifurcation between the oxidative TCA cycle and the glyoxylate shunt. In Escher ...

Nature Publishing Group2016

Immobilization of the N-terminal helix stabilizes prefusion paramyxovirus fusion proteins

Matteo Dal Peraro, Luciano Andres Abriata, Albert Sanghoon Song

Parainfluenza virus 5 (PIV5) is an enveloped, single-stranded, negative-sense RNA virus of the Paramyxoviridae family. PIV5 fusion and entry are mediated by the coordinated action of the receptor-binding protein, hemagglutinin-neuraminidase (HN), and the f ...

National Academy of Sciences2016

Cryo-EM structure of aerolysin variants reveals a novel protein fold and the pore-formation process

Françoise Gisou van der Goot Grunberg, Mircea Ioan Iacovache, Matteo Dal Peraro, Nuria Cirauqui Diaz

Owing to their pathogenical role and unique ability to exist both as soluble proteins and transmembrane complexes, pore-forming toxins (PFTs) have been a focus of microbiologists and structural biologists for decades. PFTs are generally secreted as water-s ...

Nature Publishing Group2016

Olfactory receptor pseudo-pseudogenes

Matteo Dal Peraro, Benoîte Bargeton

Pseudogenes are generally considered to be non-functional DNA sequences that arise through nonsense or frame-shift mutations of protein-coding genes(1). Although certain pseudogene-derived RNAs have regulatory roles(2), and some pseudogene fragments are tr ...

Nature Publishing Group2016

Understanding and Engineering Thermostability in DNA Ligase from Thermococcus sp 1519

Matteo Dal Peraro, Hasan Pezeshgi Modarres

The physical chemical principles underlying,enzymatic thermostability are keys to understand the way evolution has shaped proteins,to adapt to a broad range of temperatures. Understanding the molecular determinants at the basis of protein thermostability i ...

Amer Chemical Soc2015

Catalytic Metal Ions and Enzymatic Processing of DNA and RNA

Matteo Dal Peraro, Giulia Palermo, Andrea Cavalli

Two-metal-ion-dependent nucleases cleave the phosphodiester bonds of nucleic acids via the two-metal-ion (2M) mechanism. Several high-resolution X-ray structures portraying the two-metal-aided catalytic site, together with mutagenesis and kinetics studies, ...

Amer Chemical Soc2015

GtrA Protein Rv3789 Is Required for Arabinosylation of Arabinogalactan in Mycobacterium tuberculosis

Gaëlle Séraphine Kolly, Stewart Cole, Claudia Sala, Matteo Dal Peraro, Mahé Cécile Raccaud, Raju Mukherjee, Luciano Andres Abriata

Mycobacterium tuberculosis possesses a thick and highly hydrophobic cell wall principally composed of a mycolyl-arabinogalactan-peptidoglycan complex, which is critical for survival and virulence. DprE1 is a well-characterized component of decaprenyl-phosp ...

American Society for Microbiology2015

Experimental and computational studies of the effects of highly concentrated solutes on proteins: Insights into the causes and consequences of quinary protein structure and cytoplasmic organization

Matteo Dal Peraro

Wiley-Blackwell2015

Insights into the Stabilizing role of Cholesterol for the Amyloid Precursor Protein

Matteo Dal Peraro, Martina Audagnotto

Cell Press2015

Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop

Matteo Dal Peraro

Structures of biomolecular systems are increasingly computed by integrative modeling that relies on varied types of experimental data and theoretical information. We describe here the proceedings and conclusions from the first wwPDB Hybrid/Integrative Meth ...

Cell Press2015

Lipid Builder: A Framework To Build Realistic Models for Biological Membranes

Thomas Lemmin, Matteo Dal Peraro, Christophe Bovigny, Nicolas Grégoire Maïno, Giorgio Elikem Tamo

The physical and chemical characterization of biological membranes is of fundamental importance for understanding the functional role of lipid bilayers in shaping cells and organelles, steering vesicle trafficking and promoting membrane-protein signaling. ...

Amer Chemical Soc2015

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