A5074638543- Hepatitis C virus research
- Glycosylation and Glycoproteins Research
- Carbohydrate Chemistry and Synthesis
- Hepatitis B Virus Studies
- Enzyme Structure and Function
- Industrial Vision Systems and Defect Detection
- Protein Structure and Dynamics
- Advanced Proteomics Techniques and Applications
- Bioinformatics and Genomic Networks
- Cellular transport and secretion
- Estrogen and related hormone effects
- Genomics and Phylogenetic Studies
- Endoplasmic Reticulum Stress and Disease
- Retinoids in leukemia and cellular processes
- Scientific Computing and Data Management
- Advanced Algorithms and Applications
- Lipid Membrane Structure and Behavior
- Computational Drug Discovery Methods
- Protein purification and stability
- Biomedical Text Mining and Ontologies
- Biochemical and Molecular Research
- Cancer, Hypoxia, and Metabolism
- Power Line Inspection Robots
- Galectins and Cancer Biology
- Liver Disease Diagnosis and Treatment
European Bioinformatics Institute
2021-2024
Worldwide Protein Data Bank
2024
Centre de Biologie Structurale
2015-2021
University of Oulu
2017-2020
Inserm
2015-2018
Université de Montpellier
2015-2018
Centre National de la Recherche Scientifique
2010-2018
Laboratoire de Virologie Moléculaire et Structurale
2009-2012
Humans are chronically exposed to mixtures of xenobiotics referred as endocrine-disrupting chemicals (EDCs). A vast body literature links exposure these with increased incidences reproductive, metabolic, or neurological disorders. Moreover, recent data demonstrate that, when used in combination, have outcomes that cannot be predicted from their individual behavior. In its heterodimeric form the retinoid X receptor (RXR), pregnane (PXR) plays an essential role controlling mammalian xenobiotic...
Abstract The archiving and dissemination of protein nucleic acid structures as well their structural, functional biophysical annotations is an essential task that enables the broader scientific community to conduct impactful research in multiple fields life sciences. Protein Data Bank Europe (PDBe; pdbe.org ) team develops maintains several databases web services address this fundamental need. From data a member Worldwide PDB consortium (wwPDB; wwpdb.org ), PDBe Knowledge Base (PDBe‐KB;...
Glycosylation, a common modification of cellular proteins and lipids, is often altered in diseases pathophysiological states such as hypoxia, yet the underlying molecular causes remain poorly understood. By utilizing lectin microarray glycan profiling, Golgi pH redox screens, we show here that hypoxia inhibits terminal sialylation N- O-linked glycans HIF- independent manner by lowering oxidative potential. This state change was accompanied loss two surface-exposed disulfide bonds catalytic...
Biomolecular structure analysis from experimental NMR studies generally relies on restraints derived a combination of and knowledge-based data. A challenge for the structural biology community has been lack standards representing these restraints, preventing establishment uniform methods model-vs-data validation against limiting interoperability between restraint-based modeling programs. The NEF NMR-STAR formats provide standardized approach commonly used restraints. Using restraint formats,...
ABSTRACT The hepatitis C virus (HCV) NS5B protein is an RNA-dependent RNA polymerase essential for replication of the viral genome. In vitro and presumably in vivo , initiates synthesis by a de novo mechanism then processively copies whole template. Dissections genotype 1 proteins previously established that there are two successive crucial steps initiation. first dinucleotide formation, which requires closed conformation, second transition to elongation, opening NS5B. We also recently...
Aims: Carcinoembryonic antigen (CEACAM5, CEA) is a known tumor marker for colorectal cancer that localizes in polarized manner to the apical surface normal colon epithelial cells whereas it present at both and basolateral surfaces of cells. Since Golgi apparatus sorts transports most proteins these cell domains, we set out here investigate whether any factors commonly associated with tumorigenesis, including hypoxia, generation reactive oxygen species (ROS), altered redox homeostasis, or an...
Most glycosyltransferases, including B4GalT1 (EC 2.4.1.38), are known to assemble into enzyme homomers and functionally relevant heteromers in vivo. However, it remains unclear why how these enzymes interact at the molecular/atomic level. Here, we solved crystal structure of wild-type human homodimer. We also show that exists a dynamic equilibrium between monomer dimer, since purified reappears as mixture both obtained forms dimer assemblies same crystallization conditions. These two...
Abstract Motivation: The inherent promiscuity of small molecules towards protein targets impedes our understanding healthy versus diseased metabolism. This also poses a challenge for the pharmaceutical industry as identifying all is important to assess (side) effects and repositioning opportunities drug. Results: Here, we present novel integrated structure- system-based approach drug-target prediction (iDTP) enable large-scale discovery new molecules, such drugs, co-factors metabolites...
Rev-erbα and β are nuclear receptors that function as transcriptional repressors of genes involved in regulating circadian rhythms, glucose, cholesterol metabolism the inflammatory response. Given these key functions, Rev-erbs important drug targets for treatment a number human pathologies, including cancer, heart disease, type II diabetes. Transcriptional repression by involves direct competition with activators target sites, but also recruitment NCoR corepressor protein. Interestingly, do...
Thyroid hormone receptors (TRs) are tightly regulated by the corepressors nuclear receptor corepressor (NCoR) and silencing mediator of retinoic acid thyroid receptors. Three conserved corepressor/NR signature box motifs (CoRNR1-3) forming interaction domain have been identified in these corepressors. Whereas TRs regulate multiple normal physiological developmental pathways, mutations can result endocrine diseases be associated with cancers due to impairment release. mutants that located...
Macromolecular complexes are essential functional units in nearly all cellular processes, and their atomic-level understanding is critical for elucidating modulating molecular mechanisms. The Protein Data Bank (PDB) serves as the global repository experimentally determined structures of macromolecules. Structural data PDB offer valuable insights into dynamics, conformation, states biological assemblies. However, current annotation practices lack standardised naming conventions assemblies...
We present a novel system that leverages curators in the loop to develop dataset and model for detecting residue-level functional annotations other protein structure features from standard publication text. Our approach involves integration of data multiple resources, including PDBe, EuropePMC, PubMedCentral, PubMed, combined with annotation guidelines UniProt, while employing LitSuggest Huggingface models as tools process. A team seven annotators manually curated ten articles named...
Summary Biomolecular structure analysis from experimental NMR studies generally relies on restraints derived a combination of and knowledge-based data. A challenge for the structural biology community has been lack standards representing these restraints, preventing establishment uniform methods model-vs-data validation against limiting interoperability between restraint-based modeling programs. The exchange (NEF) NMR-STAR formats provide standardized approach commonly used restraints. Using...
ABSTRACT Sialic acid residues found as terminal monosaccharides in various types of glycan chains cell surface glycoproteins and glycolipids have been identified important contributors cell-cell interactions normal vs. abnormal cellular behavior are pivotal diseases such cancers. In vertebrates, sialic acids attached to by a conserved subset sialyltransferases with different enzymatic substrate specificities. ST6Gal I is sialyltransferase using activated CMP-sialic donor substrates catalyze...
Abstract Macromolecular complexes are essential functional units in nearly all cellular processes, and their atomic-level understanding is critical for elucidating modulating molecular mechanisms. The Protein Data Bank (PDB) serves as the global repository experimentally determined structures of macromolecules. Structural data PDB offer valuable insights into dynamics, conformation, states biological assemblies. However, current annotation practices lack standardised naming conventions...
Biomolecular structure analysis from experimental NMR generally relies on empirical (residual dipolar couplings, scalar paramagnetic relaxation enhancements, nuclear Overhauser effects) data and derived geometrical restraints (distance, dihedral angle). A challenge for the structural biology community has been a lack of standards representing these restraints, preventing establishment uniform methods model-vs-data validation limiting interoperability between restraint-based modeling...