Concept

Structure secondaire

Publications associées (389)

Long‑term strain measurements of traffic and temperature effects on an RC bridge deck slab strengthened with an R‑UHPFRC layer

Eugen Brühwiler, Bartlomiej Wojciech Sawicki

This paper presents the results of 28-month-long monitoring of a slab portion of the Chillon viaducts in Switzerland using strain gauges and thermocouples. This post-tensioned reinforced concrete structure was strengthened with a layer of reinforced ultrah ...

2020

Atomic Motif Recognition in (Bio)Polymers: Benchmarks From the Protein Data Bank

Michele Ceriotti, Piero Gasparotto, Benjamin Aaron Helfrecht, Federico Giberti

Rationalizing the structure and structure–property relations for complex materials such as polymers or biomolecules relies heavily on the identification of local atomic motifs, e.g., hydrogen bonds and secondary structure patterns, that are seen as buildin ...

2019

rstoolbox - a Python library for large-scale analysis of computational protein design data and structural bioinformatics

Bruno Emanuel Ferreira De Sousa Correia, Zander Harteveld, Andreas Scheck, Jaume Bonet Martinez, Fabian Sesterhenn

BackgroundLarge-scale datasets of protein structures and sequences are becoming ubiquitous in many domains of biological research. Experimental approaches and computational modelling methods are generating biological data at an unprecedented rate. The deta ...

2019

Active Site-Induced Evolutionary Constraints Follow Fold Polarity Principles in Soluble Globular Enzymes

Matteo Dal Peraro, Luciano Andres Abriata, Alexander Mayorov

A recent analysis of evolutionary rates in >500 globular soluble enzymes revealed pervasive conservation gradients toward catalytic residues. By looking at amino acid preference profiles rather than evolutionary rates in the same data set, we quantified th ...

OXFORD UNIV PRESS2019

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

Analytical Approaches for Monitoring DNA–Protein Interactions

Ardemis Anoush Boghossian, Shang-Jung Wu

DNA–protein interactions play a critical role in cellular regulation. We herein review existing analytical methods for investigating these interactions, highlighting methods such as chromatin immunoprecipitation and yeast-one-hybrid that are used to identi ...

2019

Differential Visual Proteomics: Enabling the Proteome-Wide Comparison of Protein Structures of Single-Cells

Henning Paul-Julius Stahlberg, Anastasia Syntychaki

Proteins are involved in all tasks of life, and their characterization is essential to understand the underlying mechanisms of biological processes. We present a method called "differential visual proteomics" geared to study proteome-wide structural change ...

American Chemical Society (ACS)2019

Microfluidic protein isolation and sample preparation for high-resolution cryo-EM

Henning Paul-Julius Stahlberg, Inayathulla Mohammed

High-resolution structural information is essential to understand protein function. Protein-structure determination needs a considerable amount of protein, which can be challenging to produce, often involving harsh and lengthy procedures. In contrast, the ...

Proceedings of the National Academy of Sciences2019

Cryo-EM structure of phosphodiesterase 6 reveals insights into the allosteric regulation of type I phosphodiesterases

Henning Paul-Julius Stahlberg, Andreas Engel

Cyclic nucleotide phosphodiesterases (PDEs) work in conjunction with adenylate/guanylate cyclases to regulate the key second messengers of G protein-coupled receptor signaling. Previous attempts to determine the full-length structure of PDE family members ...

American Association for the Advancement of Science (AAAS)2019

Deciphering interaction fingerprints from protein molecular surfaces using geometric deep learning

Bruno Emanuel Ferreira De Sousa Correia, Michael Bronstein, Pablo Gainza Cirauqui, Freyr Sverrisson

Predicting interactions between proteins and other biomolecules solely based on structure remains a challenge in biology. A high-level representation of protein structure, the molecular surface, displays patterns of chemical and geometric features that fin ...

2019

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