protein folding

Rab Interactions identified by DEEPN.

Rab GTPase Y2H Interactome — Verified Hit DatasetThis dataset contains the curated set of protein-protein interactions identified in a yeast two-hybrid (Y2H) screen against 36 human Rab GTPases, each tested in both nucleotide-locked conformations: GTP-bound (constitutively active, Q→L mutant) and GDP-bound (dominant-ne...

Molecular epidemiology and mechanisms of Escherichia coli resistance to ertapenem but not other carbapenems in China

To investigate the molecular epidemiology and resistance mechanisms of carbapenem-resistant Enterobacteriaceae (CRE) with a specific phenotype resistant to ertapenem, but susceptible to meropenem and imipenem. Escherichia coli isolates ( n  = 424) were collected across the country; 54 isolates were CRE,...

The RNA structural code: orchestrating gene expression and enabling precision therapies.

Formulation of a Bioactive Rutin-Enriched Poly-Herbal Hydrogel Matrix: Mechanistic In Silico and In Vivo Acceleration of Diabetic Wound Healing Pathways

Abstract – Development of a Wound Healing Bioactive Rutin-Enriched Poly-Herbal Hydrogel Matrix: In Silico Mechanism and In Vivo(In Vivo done by Insilico AI) Acceleration of Diabetic Wound Healing Events Background: Diabetic wound pathogenesis involves sustained inflammation, oxidative stress, poor angiogenesis, bacteri...

Graph-Spectral Protein Folding: Simulating Peptide Self-Assembly via Laplacian Fiedler Vector Optimization

Protein folding is traditionally described as a trajectory over a complex energy landscape governed by empirical physical forcefields (electrostatics, van der Waals, torsional potentials, and implicit/explicit solvent interactions). However, evaluating all atomic force interactions demands massive computational power,...

Graph-Spectral Protein Folding: Simulating Peptide Self-Assembly via Laplacian Fiedler Vector Optimization

Protein folding is traditionally described as a trajectory over a complex energy landscape governed by empirical physical forcefields (electrostatics, van der Waals, torsional potentials, and implicit/explicit solvent interactions). However, evaluating all atomic force interactions demands massive computational power,...

Tryptophan oxidation-induced dynamics highlight why stable γS-crystallin variants aggregate

Human γS-crystallin is a highly soluble protein found in the eye lens, where it is densely packed with other proteins to form the refractive tissue required for vision. Mutations in γS can compromise its solubility and cause congenital cataract, while post-translational modifications (PTMs) can lead to age-related cata...

Cryo-EM Structure of Siphophage Avs-1 Reveals a Conserved Virion Architecture with a Specialized Tripod-like Tail Tip for Host Recognition

Bacteriophages are increasingly considered viable alternatives to antibiotics for controlling aquaculture pathogens, yet the structural basis of siphophage infection in aquatic bacteria remains largely unexplored. Here, we present the near-atomic-resolution cryo-electron microscopy structure of Avs-1, a siphophage infe...

A Seven Amino Acid Long Region in the Cardiac Cav1.2, Encompassing Ser1487, Is Essential for Mice Embryonic Development and “Fight or Flight” Responses

The cardiac calcium channel Cav1.2 is essential for embryonic development, cardiac excitation–contraction coupling, and the “Fight or Flight” response. Regulation of Cav1.2 by protein kinase A (PKA) phosphorylation is critical to this process, though the underlying mechanism remains contentious. We previously identifie...

Molecular mechanisms of Ded1p phase separation

Liquid-liquid phase separation (LLPS) describes a mechanism that results in the clustering of biomacromolecules, such as nucleic acids and proteins, into large microscopically visible foci. On a molecular level, LLPS is the result of a not fully characterized, redundant network of weak protein-protein and protein-RNA i...

Rab Interactions identified by DEEPN.

Rab GTPase Y2H Interactome — Verified Hit DatasetThis dataset contains the curated set of protein-protein interactions identified in a yeast two-hybrid (Y2H) screen against 36 human Rab GTPases, each tested in both nucleotide-locked conformations: GTP-bound (constitutively active, Q→L mutant) and GDP-bound (dominant-ne...

Supplementary materials

Supplementary single-cell sequencing and protein quantification maps. Supplementary Figure S1. Marker-gene expression across annotated cell types.Dot plot showing representative marker-gene expression across the annotated cell types in GSE135893. Dot size indicates the percentage of cells expressing each gene, whereas...