A5037356439- Ubiquitin and proteasome pathways
- Protein Structure and Dynamics
- Autophagy in Disease and Therapy
- RNA and protein synthesis mechanisms
- Enzyme Structure and Function
- Studies on Chitinases and Chitosanases
- Machine Learning in Bioinformatics
- Bioinformatics and Genomic Networks
- Drug Transport and Resistance Mechanisms
- Neutrophil, Myeloperoxidase and Oxidative Mechanisms
- Immune Response and Inflammation
- Microbial Metabolic Engineering and Bioproduction
- Lipid metabolism and biosynthesis
- Trace Elements in Health
- DNA and Nucleic Acid Chemistry
- Endoplasmic Reticulum Stress and Disease
- Advanced Proteomics Techniques and Applications
- Lipid Membrane Structure and Behavior
- Hemoglobin structure and function
- Metal complexes synthesis and properties
- Health and Medical Research Impacts
- Advanced biosensing and bioanalysis techniques
- Genetic Neurodegenerative Diseases
- Sex and Gender in Healthcare
- Diversity and Career in Medicine
Laboratoire de Biochimie Théorique
2023-2024
Centre National de la Recherche Scientifique
2023-2024
Université Paris Cité
2023-2024
Institut de Biologie Physico-Chimique
2023
Danish Cancer Society
2019-2021
Boğaziçi University
2013-2020
Intrinsically disordered proteins, defying the traditional protein structure-function paradigm, are a challenge to study experimentally. Because large part of our knowledge rests on computational predictions, it is crucial that their accuracy high. The Critical Assessment Intrinsic Disorder prediction (CAID) experiment was established as community-based blind test determine state art in intrinsically regions and subset residues involved binding. A total 43 methods were evaluated dataset 646...
Abstract The Database of Protein Disorder (DisProt, URL: https://disprot.org) provides manually curated annotations intrinsically disordered proteins from the literature. Here we report recent developments with DisProt (version 8), including doubling protein entries, a new disorder ontology, improvements annotation format and completely website. website includes redesigned graphical interface, better search engine, clearer API for programmatic access interface that integrates text mining...
Macroautophagy/autophagy is a cellular process to recycle damaged components, and its modulation can be exploited for disease treatments. A key autophagy player the ubiquitin-like protein MAP1LC3B/LC3B. Mutations changes in MAP1LC3B expression occur cancer samples. However, investigation of effects these mutations on structure still missing. Despite many LC3B structures that have been solved, comprehensive study, including dynamics, has not yet undertaken. To address this knowledge gap, we...
The role of genomic variants in disease has expanded significantly with the advent advanced sequencing techniques. rapid increase identified led to many being classified as Variants Uncertain Significance or having conflicting evidence, posing challenges for their interpretation and characterization. Additionally, current methods predicting pathogenic often lack insights into underlying molecular mechanisms. Here, we introduce MAVISp ( M ulti-layered A ssessment V arIants by S tructure p...
Ubiquitin is a small protein at the heart of many cellular processes, and several different domains are known to recognize bind ubiquitin. A common motif for interaction with ubiquitin Interacting Motif (UIM), characterized by conserved sequence signature often found in multi-domain proteins. Multi-domain proteins intrinsically disordered regions mediate interactions multiple partners, orchestrating diverse pathways. Short linear motifs binding embedded these play crucial roles modulating...
Escherichia coli cyclic AMP Receptor Protein (CRP) undergoes conformational changes with cAMP binding and allosterically promotes CRP to bind specifically the DNA. In that, structural dynamic properties of apo prior are interest for comprehension activation mechanism. Here, dynamics monomer/dimer holo dimer were studied by Molecular Dynamics (MD) simulations Gaussian Network Model (GNM). The interplay inter-domain hinge DNA domains pre-disposed in state as a switch CRP's allosteric...
The phagocyte NADPH oxidase complex (NOX2) is activated by various intracellular stimuli, resulting in the generation of reactive oxygen species, which are responsible for many physiological processes, including innate immune defense. Structures cytochrome b558, membrane catalytic core complex, their resting state have been solved experimentally. Unfortunately, very little known about structure active as it involves assembly modular proteins and disordered regions, that shown to be essential...
Abstract Autophagy is a cellular process to recycle damaged components and its modulation can be exploited for disease treatments. A key autophagy player ubiquitin-like protein, LC3B. Compelling evidence attests the role of LC3B in different cancer types. Many structures have been solved, but comprehensive study, including dynamics, has not yet undertaken. To address this knowledge gap, we assessed ten physical models molecular dynamics their capabilities describe structural ensemble...
AlphaFold2 (AF2) and RoseTTaFold (RF) have revolutionized structural biology, serving as highly reliable effective methods for predicting protein structures. This article explores their impact limitations, focusing on integration into experimental pipelines application in diverse classes, including membrane proteins, intrinsically disordered proteins (IDPs), oligomers.In pipelines, AF2 models aid X-ray crystallography resolving the phase problem, while complementarity with Mass Spectrometry...