protein folding

Microsecond Barrier-Crossing Collapse in Cytochrome c Folding Revealed by Two-Dimensional Fluorescence Lifetime Correlation Spectroscopy

The results reveal that the collapse exhibits two-state dynamics between structurally distributed ensembles, occurring on a time scale of tens of microseconds across all variants, indicating a global contraction of the whole protein structure with a substantial free energy barrier.

Mitochondrial Genome Comparison and Phylogenetic Analysis of the Family Carabidae (Coleoptera: Adephaga)

Simple Summary This study enhances our understanding of the evolutionary relationships within the ground beetle family Carabidae by sequencing the complete mitochondrial genomes of five species, including four newly determined mitogenomes and one resequenced species. These mitogenomes contain the typical set of 37 gene...

Salt Stress Accelerates Tyrosine Depletion by Enterococcus lactis KUST2812: Multi-Omics Insights into Metabolic Remodeling

Enterococcus lactis KUST2812 is a halotolerant strain isolated from broad bean paste (BBP). It shows strong potential as a safe fermentation starter due to its high survival rate (98.32% in 18% NaCl), absence of hemolytic activity, and susceptibility to clinically relevant antibiotics, with resistance limited to intrin...

Effect of encapsulation on hygroscopic, structural, physico-thermal and in vitro release properties of DPP-IV inhibitory peptides-rich sodium caseinate hydrolysates

Considering the increasing worldwide prevalence of Type 2 diabetes mellitus (T2DM), utilizing milk protein-derived bioactive peptides offers a promising and sustainable solution to manage hyperglycemia. However, formulating functional foods rich in Dipeptidyl peptidase-IV (DPP-IV) inhibitory peptides is hindered by the...

Transcriptomic and Genomic Insights into HSP-Mediated Protein Homeostasis in Ulmus parvifolia under Temperature Stress

CBFLivUni/CNOSerumProteinsPublic: CNO Serum Proteomics Biomarkers: peer review release, minor updates.

This repository contains the code and analysis workflows associated with the publication "Serum Proteome Profiling Reveals a Candidate Biomarker Signature for Paediatric Chronic Nonbacterial Osteomyelitis (CNO)/Chronic Recurrent Multifocal Osteomyelitis (CRMO)” by Eve Roberts, Euan McDonnell, Phillip Brownridge, James...

Simulation of Biomolecular Condensates with Martini3-IDP

Inside our cells, some proteins remain flexible and dynamic rather than folding into rigid shapes. These intrinsically disordered proteins (IDPs) can assemble into liquid-like biomolecular condensates, like oil droplets in water solution, to organize cellular biochemistry without encapsulating lipid membranes while con...

A Single-Administration AAV Gene Therapy Expressing an Affinity-Detuned Feline AIM (m-fAIM) for Chronic Kidney Disease in the Domestic Cat: A Theoretical Development Program

This work presents a theoretical development program for a single-administration adeno-associated virus (AAV) gene therapy designed to treat chronic kidney disease (CKD) in the domestic cat. The approach centers on the delivery of an affinity-detuned variant of feline Apoptosis Inhibitor of Macrophage (m-fAIM), enginee...

Processed transcriptomic and proteomic datasets supporting the multi-omics analysis in the manuscript

This dataset contains processed transcriptomic and proteomic data generated from inguinal white adipose tissue collected from control mice, obesity-associated PCOS model mice, and PCOS mice treated with high-dose Atractylodis Rhizoma-derived exosome-like nanovesicles (AR-ELNs). These data support the multi-omics analys...

Breaking timescales with generative sampling of conformational transitions

Gen-COMPAS is introduced, a generative committor-guided path-sampling framework that reconstructs rare biomolecular transition pathways and reveals the underlying thermodynamics and kinetics without using predefined collective variables or brute-force sampling, at an acceptable computational cost.

Exosome-Mediated Bidirectional Signaling Regulates Glioma Stem-Cell Homeostasis and Radiation-Induced Plasticity

Exosome-mediated intercellular communication is identified as a potential mechanism regulating GBM cellular homeostasis, treatment resistance, and recurrence and is used to establish a bidirectional feedback circuit between stem-like and differentiated tumor-cell compartments.

Co-translational O-glycosylation driven by GALNTs spatial reprogramming fosters pancreatic cancer growth

Signal-driven relocation of GalNAc-transferases (GALNTs) from the Golgi to the ER, termed GALA, promotes tumour growth, but its effects on glycosylation are unclear. Unlike N-glycosylation, which is co-translational, O-glycosylation initiates post-translationally in the Golgi. Here we show that GALA subverts this arran...