protein folding

Structural biology of protein misfolding and aggregation: from disease to therapeutic innovations

LncFENIX restricts influenza A virus replication by impairing PDIA3-mediated oxidative folding of hemagglutinin

Influenza A virus (IAV) relies on host endoplasmic reticulum (ER) homeostasis machinery to support the oxidative folding and maturation of viral glycoproteins. Although long non-coding RNAs (lncRNAs) are increasingly recognized as critical regulators of host-virus interactions, whether host lncRNAs modulate ER protein-...

Plasma multi-omics reveals molecular remodeling and prognostic biomarkers in advanced breast cancer treated with trastuzumab deruxtecan

Trastuzumab deruxtecan (T-DXd), a HER2-targeted antibody-drug conjugate, has demonstrated clinical activity in HER2-positive and HER2-low advanced breast cancer. However, treatment outcomes remain heterogeneous, and circulating molecular correlates of treatment and prognosis are incompletely defined. Twenty-...

Assembly-Pathway Regulation Dictates pH-Responsive Actuation in the R-Body Protein Machinery

Abstract Refractile bodies (R-bodies) are protein assemblies that form intracellular rolls and extend into spirals in response to environmental stimuli. Type 51 R-body assembles from four Reb proteins and undergoes rapid, repeatable ∼50-fold extension. Although R-bodies were described more than 70 years ago, the roles...

An Evolutionarily Conserved Ypk1/SGK1 Kinase Pathway Regulates the Unfolded Protein Response by Modulating the Ire1 Protein Abundance

The unfolded protein response (UPR) is a cellular mechanism that maintains protein homeostasis (proteostasis) under conditions of endoplasmic reticulum (ER) stress. The dual kinase/RNase Ire1 is a conserved regulator of the UPR, mediating the unconventional cytosolic splicing of HAC1 mRNA in yeast and XBP1 mRNA in huma...

Lipid-associated architecture and divergent ammonium transport distinguish a bacterial Rhesus protein

Nitrification is a major process in the global nitrogen cycle, initiated by the oxidation of ammonia to nitrite. The ammonia-oxidising bacterium Nitrosomonas europaea catalyses this first and rate-limiting step and depends on ammonium both as an energy substrate and as a nitrogen source, making ammonium acquisition cen...

Gain and loss of acquired doxycycline resistance in Lactiplantibacillus plantarum : an adaptive laboratory evolution study

ABSTRACT Probiotics interact in a mutualistic way with humans. Exposure of probiotics to sublethal concentrations of commonly prescribed antibiotics can cause resistance to arise. Over 1,000 generations, we performed an adaptive laboratory evolution experiment to determine if the fitness of the probiotic Lactiplantibac...

Biochar mitigates dimethylarsenate-stimulated methane emissions mediated by DOM-microbe interactions in paddy soils

Paddy soils represent key biogeochemical interfaces linking arsenic (As) transformation and carbon (C) cycling. Dimethylarsenate (DMAs), a widespread organoarsenic contaminant in rice paddies, can alter methane (CH 4 ) dynamics, but the underlying mechanisms based on dissolved organic matter (DOM)-microbe inter...

Purification, Characterization, and In Vitro Safety Assessment of the Antimicrobial Peptide SAM-KB40 from Bacillus licheniformis SAM-D318.

While the peptide shows promising in vitro dual antibacterial and toxin-neutralizing capacity, its high sensitivity to proteinase K limits oral application.

ElastoGraph: An Open-Source Algorithmic Framework for the Topological Assessment of Molecular Stiffness Applied to Polysaccharide Networks

The prediction of mechanical properties at the molecular scale relies on matrix-based approaches, such as the diagonalization of large Hessian matrices in elastic network models (ENMs) or molecular dynamics (MD) simulations. These methods exhibit O(N3) computational complexity and map molecular connectivity to macrosco...

Prospecting the protein design landscape.

Generative AI has driven remarkable breakthroughs in protein design, enabling the rapid, computationally guided creation of high-affinity binders against diverse targets. While remarkable experimental success has been demonstrated, the confidence metrics used to filter and evaluate designs remain optimized for static p...

Quantitative Occurrence of Polycyclic Aromatic Hydrocarbons in Heat-Processed Fish and Meat Products in Variable Processing Matrices

Polycyclic aromatic hydrocarbons (PAHs) are carcinogenic contaminants formed endogenously during high-temperature processing of protein-rich foods. This investigation evaluated the occurrence and dietary risk associated with four priority PAHs — benzo[a]pyrene (BaP), chrysene (Chr), benz[a]anthracene (BaA) and benzo...