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Author Details

Matteo Dal Peraro
Institute of Bioengineering
2001
123
38
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37072397PeSTo: parameter-free geometric deep learning for accurate prediction of protein binding interfaces.Nat Commun2023
37612504Structural mechanism of mitochondrial membrane remodelling by human OPA1.Nature2023
35325844Online tools to easily build virtual molecular models for display in augmented and virtual reality on the web.J Mol Graph Model2022
35445188Biological nanopores for single-molecule sensing.iScience2022
35377651Ultrasensitive Label-Free Detection of Protein-Membrane Interaction Exemplified by Toxin-Liposome Insertion.J Phys Chem Lett2022
36306796Structure and functionality of a multimeric human COQ7:COQ9 complex.Mol Cell2022
34025949Assessment of transferable forcefields for protein simulations attests improved description of disordered states and secondary structure propensities, and hints at multi-protein systems as the next challenge for optimization.Comput Struct Biotechnol J2021
33514540Extensive tissue-specific expression variation and novel regulators underlying circadian behavior.Sci Adv2021
33707782Palmitoylated acyl protein thioesterase APT2 deforms membranes to extract substrate acyl chains.Nat Chem Biol2021
34888501Prolyl endopeptidase-like is a (thio)esterase involved in mitochondrial respiratory chain function.iScience2021
34381813Investigating Crosstalk Among PTMs Provides Novel Insight Into the Structural Basis Underlying the Differential Effects of Nt17 PTMs on Mutant Httex1 Aggregation.Front Mol Biosci2021
34779586BET1 variants establish impaired vesicular transport as a cause for muscular dystrophy with epilepsy.EMBO Mol Med2021
34599882S-acylation controls SARS-CoV-2 membrane lipid organization and enhances infectivity.Dev Cell2021
34020540State-of-the-art web services for de novo protein structure prediction.Brief Bioinform2021
34310214Specific Protein-Membrane Interactions Promote Packaging of Metallo-β-Lactamases into Outer Membrane Vesicles.Antimicrob Agents Chemother2021
32428455Ligand Binding to the Collagen VI Receptor Triggers a Talin-to-RhoA Switch that Regulates Receptor Endocytosis.Dev Cell2020
34163788Structural basis for recognition of bacterial cell wall teichoic acid by pseudo-symmetric SH3b-like repeats of a viral peptidoglycan hydrolase.Chem Sci2020
32053168About the need to make computational models of biological macromolecules available and discoverable.Bioinformatics2020
33313488The Human RNA Helicase DDX21 Presents a Dimerization Interface Necessary for Helicase Activity.iScience2020
33298438Aerolysin nanopores decode digital information stored in tailored macromolecular analytes.Sci Adv2020
33005628Editorial: Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations.Front Mol Biosci2020
32668197The Polyglutamine Expansion at the N-Terminal of Huntingtin Protein Modulates the Dynamic Configuration and Phosphorylation of the C-Terminal HEAT Domain.Structure2020
32865963Molecular Bases of the Membrane Association Mechanism Potentiating Antibiotic Resistance by New Delhi Metallo-β-lactamase 1.ACS Infect Dis2020
32213614Salt Enhances the Thermostability of Enteroviruses by Stabilizing Capsid Protein Interfaces.J Virol2020
32385234Btk SH2-kinase interface is critical for allosteric kinase activation and its targeting inhibits B-cell neoplasms.Nat Commun2020
32134661Will Cryo-Electron Microscopy Shift the Current Paradigm in Protein Structure Prediction?J Chem Inf Model2020
30661980An Isoprene Lipid-Binding Protein Promotes Eukaryotic Coenzyme Q Biosynthesis.Mol Cell2019
31664022Single-molecule sensing of peptides and nucleic acids by engineered aerolysin nanopores.Nat Commun2019
31862951An experiment-informed signal transduction model for the role of the Staphylococcus aureus MecR1 protein in β-lactam resistance.Sci Rep2019
31772055Transmembrane Prolines Mediate Signal Sensing and Decoding in Bacillus subtilis DesK Histidine Kinase.mBio2019
31344267A further leap of improvement in tertiary structure prediction in CASP13 prompts new routes for future assessments.Proteins2019
31427381KAP1 is an antiparallel dimer with a functional asymmetry.Life Sci Alliance2019
31481281Editorial overview: The future after the cryo-EM resolution revolution.Curr Opin Struct Biol2019
31394387Modelling structures in cryo-EM maps.Curr Opin Struct Biol2019
31004173Active Site-Induced Evolutionary Constraints Follow Fold Polarity Principles in Soluble Globular Enzymes.Mol Biol Evol2019
29235142Assessment of data-assisted prediction by inclusion of crosslinking/mass-spectrometry and small angle X-ray scattering data in the 12<sup>th</sup> Critical Assessment of protein Structure Prediction experiment.Proteins2018
30026547Mapping the sensing spots of aerolysin for single oligonucleotides analysis.Nat Commun2018
29398448Nucleo-cytosolic Shuttling of ARGONAUTE1 Prompts a Revised Model of the Plant MicroRNA Pathway.Mol Cell2018
29198567Conserved Lipid and Small-Molecule Modulation of COQ8 Reveals Regulation of the Ancient Kinase-like UbiB Family.Cell Chem Biol2018
29097209Recruitment of the amyloid precursor protein by γ-secretase at the synaptic plasma membrane.Biochem Biophys Res Commun2018
29044714Definition and classification of evaluation units for tertiary structure prediction in CASP12 facilitated through semi-automated metrics.Proteins2018
29139163Assessment of hard target modeling in CASP12 reveals an emerging role of alignment-based contact prediction methods.Proteins2018
29066778Structural, physicochemical and dynamic features conserved within the aerolysin pore-forming toxin family.Sci Rep2017
28414715Transcriptional regulatory logic of the diurnal cycle in the mouse liver.PLoS Biol2017
28111079Evolution of Acid-Sensing Olfactory Circuits in Drosophilids.Neuron2017
28458782Protein post-translational modifications: <i>In silico</i> prediction tools and molecular modeling.Comput Struct Biotechnol J2017
28303031A Biologically-validated HCV E1E2 Heterodimer Structural Model.Sci Rep2017
28331186Disentangling constraints using viability evolution principles in integrative modeling of macromolecular assemblies.Sci Rep2017
28475313Signal Sensing and Transduction by Histidine Kinases as Unveiled through Studies on a Temperature Sensor.Acc Chem Res2017
28982678Functional assays for the assessment of the pathogenicity of variants of GOSR2, an ER-to-Golgi SNARE involved in progressive myoclonus epilepsies.Dis Model Mech2017
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Collaborators

Thomas Lemmin
Co-authored papers 11
David J Pagliarini
Washington University School of Medicine
Co-authored papers 5
William F DeGrado
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 4
Adam Jochem
Morgridge Institute for Research
Co-authored papers 3
Henning Stahlberg
Ecole Polytechnique Federale de Lausanne (EPFL), University of Lausanne
Co-authored papers 2
Andriy Kryshtafovych
University of California davis
Co-authored papers 2
John L Markley
University of Wisconsin-Madison
Co-authored papers 2
Michael Schwake
Northwestern University
Co-authored papers 2
Alexandre M J J Bonvin
Bijvoet Center for Biomolecular Research, Utrecht University
Co-authored papers 2
Maya Topf
Leibniz-Institut fur Virologie (LIV)
Co-authored papers 2
Dmitri I Svergun
King's College London BHF Centre for Research Excellence
Co-authored papers 2
Richard Benton
Center for Integrative Genomics, University of Lausanne
Co-authored papers 2
Adam Frost
University of California San Francisco
Co-authored papers 2
Stephen K Burley
The State University of New Jersey
Co-authored papers 1
Torsten Schwede
University of Basel
Co-authored papers 1
Alexander Leitner
ETH Zurich
Co-authored papers 1
Juri Rappsilber
Institute for Biotechnology, Technical University Berlin
Co-authored papers 1
Gaetano T Montelione
Rensselaer Polytechnic Institute
Co-authored papers 1
Rommie E Amaro
University of California
Co-authored papers 1
Zheng Ruan
Co-authored papers 1
Oliver Hantschel
Institute of Physiological Chemistry, University of Marburg 35032 Marburg Germany .
Co-authored papers 1
Jill Trewhella
The University of Sydney
Co-authored papers 1
Beryl B Cummings
Co-authored papers 1
Frank Alber
University of California los angeles
Co-authored papers 1
Ruth Nussinov
Sackler School of Medicine, Tel Aviv University
Co-authored papers 1
Charles D Schwieters
National Institute of Diabetes and Digestive and Kidney Diseases
Co-authored papers 1
Benjamin F Cravatt
Scripps Research Institute
Co-authored papers 1
Graham D Clinthorne
University of Pennsylvania
Co-authored papers 1
Sameer Velankar
European Bioinformatics Institute
Co-authored papers 1
Frank DiMaio
University of Washington
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Release 1.2