protein folding

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...

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.

Selective PTP1B inhibition by A-1331852: Uncompetitive kinetics and computational evidence for C-terminal engagement.

Repurposing the clinical-stage Bcl-xL BH3 mimetic A-1331852 is identified as a potent PTP1B inhibitor demonstrating a selectivity margin of at least 50-fold over TCPTP, highlighting A-1331852 as a promising starting point for developing PTP1B inhibitors designed to exploit transient, substrate-induced binding states.

The serine-rich C-terminal tail of the Listeria monocytogenes secretion chaperone PrsA2 is critical for bacterial virulence and resistance to cell-wall active antibiotics.

This work characterizes the Lm PrsA2 C-tail, demonstrating its contribution to bacterial virulence, chaperone function, and secreted protein activity and highlights its crucial role against cell-wall targeting antibiotics.

Staged structural changes of fermented chicken breast myofibrillar protein: Conformational unfolding and aggregation.

Fermented chicken breast is promoted as a healthier alternative to traditional high-fat fermented meat products, yet its quality depends critically on the structural state of myofibrillar protein (MP). To clarify how MP deteriorates during extended natural fermentation, this study established a 150-day fermentation mod...