Publications de Giorgio Elikem Tamo

CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles

Matteo Dal Peraro, Sylvain Träger, Martina Audagnotto, Giorgio Elikem Tamo, Deniz Aydin, Giulia Fonti

Motivation: Proteins are intrinsically dynamic entities. Flexibility sampling methods, such as molecular dynamics or those arising from integrative modeling strategies, are now commonplace and enable the study of molecular conformational landscapes in many ...

OXFORD UNIV PRESS2021

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

A further leap of improvement in tertiary structure prediction in CASP13 prompts new routes for future assessments

Matteo Dal Peraro, Luciano Andres Abriata, Giorgio Elikem Tamo

We present our assessment of tertiary structure predictions for hard targets in Critical Assessment of Structure Prediction round 13 (CASP13). The analysis includes (a) assignment and discussion of best models through scores-aided visual inspection of mode ...

WILEY2019

Assessment of data-assisted prediction by inclusion of crosslinking/mass-spectrometry and small angle X-ray scattering data in the 12(th) Critical Assessment of protein Structure Prediction experiment

Matteo Dal Peraro, Luciano Andres Abriata, Giorgio Elikem Tamo, Giulia Fonti

2018

Assessment of hard target modeling in CASP12 reveals an emerging role of alignment-based contact prediction methods

Matteo Dal Peraro, Luciano Andres Abriata, Giorgio Elikem Tamo

2018

Definition and classification of evaluation units for tertiary structure prediction in CASP12 facilitated through semi-automated metrics

Matteo Dal Peraro, Luciano Andres Abriata, Giorgio Elikem Tamo

2018

Constrained optimization applied to multiscale integrative modeling

Giorgio Elikem Tamo

Multiscale integrative modeling stands at the intersection between experimental and computational techniques to predict the atomistic structures of important macromolecules. In the integrative modeling process, the experimental information is often integra ...

EPFL2018

One Constraint at a Time: Using Viability Principles in Integrative Modeling of Macromolecular Assemblies

Dario Floreano, Matteo Thomas Degiacomi, Matteo Dal Peraro, Andrea Maesani, Giorgio Elikem Tamo

Cell Press2017

Disentangling constraints using viability evolution principles in integrative modeling of macromolecular assemblies

Dario Floreano, Matteo Thomas Degiacomi, Matteo Dal Peraro, Sylvain Träger, Andrea Maesani, Giorgio Elikem Tamo

Predicting the structure of large molecular assemblies remains a challenging task in structural biology when using integrative modeling approaches. One of the main issues stems from the treatment of heterogeneous experimental data used to predict the archi ...

Nature Research2017

The importance of dynamics in integrative modeling of supramolecular assemblies

Matteo Dal Peraro, Luciano Andres Abriata, Giorgio Elikem Tamo

Revealing the atomistic architecture of supramolecular complexes is a fundamental step toward a deeper understanding of cellular functioning. To date, this formidable task is facilitated by an emerging array of integrative modeling approaches that combine ...

Current Biology Ltd2015

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