protein folding

Massively parallel characterization of RNA G-quadruplex stability and molecular recognition

RNA G-quadruplexes (rG4s) have been implicated as important regulators of RNA metabolism and are promising targets for RNA-targeted therapeutics. rG4s typically require a canonical (G≥2N1-7)4 motif, but the sequence features that affect rG4 stability and recognition by RNA-binding proteins (RBPs) and rG4-binding ligand...

Targeting PI3K decreases trogocytosis-mediated CAR T cell fratricide

CAR T cell-mediated trogocytosis (CMT) is a proposed mechanism of tumor immune evasion, in which the cognate interaction between CAR T cells and tumor cells results in the transfer of target antigen from the tumor cell surface to the CAR T cell. In addition to the emergence of antigen-negative target cells, antigen-pos...

Viscoelasticity and Interface Properties of Multi-Component Condensates Govern Protein Sequestration and Suppression of Amyloid Formation

CatESO: Differentiable Enzyme Sequence Optimization Guided by Substrate-Aware K cat Prediction

Abstract Enzymes drive biological chemistry and offer greener routes to chemicals, materials, and medicines, yet their broader use as biocatalysts is often limited by insufficient catalytic turnover. Improving turnover is hard: measured rate constants are scarce and protein sequence space is vast. Deep learning models...

基于动态拓扑的生物分子动力学模拟

This paper presents a novel approach to biological molecular dynamics simulations utilizing dynamic topology. Traditional methods often rely on static molecular arrangements, limiting the ability to capture intricate interactions. We introduce a dynamic topology framework that dynamically adjusts the geometry of molecu...

Title: Statistical Topology of Complex Structures

This paper investigates the statistical topology of complex structures, focusing on the identification of underlying patterns and prediction of emergent behavior within datasets exhibiting inherent statistical properties. We propose a novel method, the "Resonance Field" concept, to quantify these properties and establi...

Figure S2

Figure S2. Renal expression profile of qPCR-assessed candidate miRNA target genes in CLP and sham piglets. The horizontal bar plot shows log2 fold changes in renal mRNA expression in CLP relative to sham kidneys after normalization to 18S rRNA. Positive and negative values indicate higher and lower expression in the CL...

From drug export to envelope fitness: characterizing the regulatory landscape of selective Escherichia coli ABC efflux pumps

The data show that ABC pumps are tightly integrated into a regulatory network governing envelope stress, osmotic adaptation, and biofilm formation—not just drug export.

Author response: Genome-wide synthetic-lethality screen of Bam complex associated genes in Escherichia coli

Biogenesis of the bacterial outer membrane is key to bacterial survival and antibiotic resistance. Central to this is the β-barrel assembly machine (Bam) complex and its associated chaperones, which are responsible for transport, folding and insertion of outer membrane proteins (OMPs). The Escherichia coli Bam complex...

Development of Approaches and Identifying Limitations toward Functional Yeast Surface Display of FLS2

Abstract Pattern recognition receptors such as FLAGELLIN SENSING 2 (FLS2) are central to plant immunity and attractive targets for engineering broader detection of bacterial phytopathogens for application in pest management (and diagnostics) in food crops and sustainable agriculture practices. However, evaluating numer...

Circular Economy Approach for Whey Valorization: Coacervation of Proteins with Carboxymethylcellulose for Dairy Small- and Medium-Sized Enterprises

The valorization of whey, the main byproduct of cheese manufacture, is hindered for small and medium-sized dairy enterprises (SMEs) by the high cost of conventional separation technologies such as membrane filtration and chromatography. In this work, complex coacervation between whey proteins and carboxymethylcellulo...

Dual-Site Covalent Targeting Enables BD2-Selective BET Inhibition With Potent Antitumor Activity in Mice.

Bromodomain and extra-terminal (BET) proteins are validated therapeutic targets for cancer, but clinical translation of pan-BET inhibitors is limited by dose-limiting toxicities from non-selective inhibition of BD1/BD2 domains. Herein, we report the first-ever domain-selective covalent inhibitor, named ipAE1, of BET BD...