protein folding

Genome-wide identification and characterization of the galactinol synthase (GmGolS) gene family and its expression under drought, heat, and combined stress in soybean

Abstract Galactinol synthase (GolS) catalyzes the first committed step in raffinose family oligosaccharide (RFO) biosynthesis and is implicated in plant adaptation to abiotic stress. Although GolS gene families have been characterized in several plant species, a comprehensive genome-wide analysis in soybean has been la...

Temporally Validated Models for Target “Tclin-likeness”

Abstract Identifying which human proteins are likely to become validated drug targets remains a challenge in drug discovery. We build on the “Tclin” concept, which encompasses proteins for which at least one approved drug exerts its mode of action (MoA); these comprise only ∼3% of the human proteome. We developed disea...

The Topological Mechanics of Protein Recognition

This deposit contains the complete monograph, formal mathematical proofs, software implementations, and supplementary computational assets introducing The Topological Mechanics of Protein Recognition, an exact algebraic-topological and geometric framework for de novo therapeutic protein design. Heretofore, a central an...

Toward a Transferable Representation of Protein Dynamics for Functional Prediction and Mechanistic Discovery

Protein function is determined not only by the static structure of molecules, but also by coordinated conformational fluctuations that occur across various spatial and temporal scales. Molecular dynamics simulations, elastic network models, principal component analysis, and related approaches offer useful descriptions...

Review of: "Protein Structure Prediction in the 3D HP Model Using Deep Reinforcement Learning"

What the work claimsThe authors treat folding in the 3D Hydrophobic-Polar lattice model as a sequential decision problem: the chain is built as a self-avoiding walk on the cubic lattice, one residue per step, and a Deep Q-Network with experience replay and a target network learns where to place the next residue, with t...

Omics data discovery agents: Agent-supported retrieval, reanalysis, and synthesis of published omics data.

The biomedical literature contains a vast collection of omics studies, yet most published data remain functionally inaccessible for computational reuse. When raw data are deposited in public repositories, essential information for reproducing reported results is dispersed across main text, supplementary files, and code...

Tim17 and Stress Adaptation in Trypanosoma brucei

Trypanosoma brucei, a parasitic protozoan, is the infectious agent of a deadly disease in humans and livestock known as African trypanosomiasis. TbTim17 is the major component of the TbTIM complex that imports hundreds of nuclear-encoded proteins into the mitochondria. Here, we show that depletion of TbTim17 increased...

Responses of Anti-Apoptotic Molecules to EAgNPs and EAgNPs Plus L-Buthionine-Sulfoximine in Human Tongue Cancer Cells

This combinatorial strategy effectively lowers the therapeutic dose threshold of EAgNPs by disabling cancer cell adaptive resistance, providing a low-toxicity, translationally feasible approach for localized oral cancer treatment.

Global resurgence of norovirus GII.17[P17] accompanies shifting phylogeographic connectivity patterns: surveillance in Jiangsu, 2023–2025

Inferred phylogeographic connectivity patterns indicate that the primary centers of GII.17[P17] lineage dispersal have shifted from East Asia to Northwest Europe and carries lineage-specific amino acid substitutions in antigenic epitopes temporally associated with its global expansion.

Targeting the Ero1α-PDI oxidative protein folding pathway as a broad-spectrum strategy against coronavirus

Extending the Protein-Engineering Continuum: Cross-Kingdom Chimeric Proteins from Evolutionarily Divergent Components

Protein engineering has evolved from modifying naturally occurring proteins toward modular, computational, and AI-assisted approaches for designing new molecular functions. Chimeric and fusion protein engineering has demonstrated that functional elements from different proteins can be reorganized into novel architectur...

A miniature bioluminescent platform for imaging structured RNAs

A miniaturized bioluminescent platform for RNA imaging that employs a compact RNA tag that assembles luciferase fragments upon binding of monomeric RNA-binding proteins (RNA lanterns) and establishes a miniaturized bioluminescent platform for imaging a broad range of RNA targets in living systems.