RNA-Ligand Interactions, Part A focuses on structural biology methods. Major topics covered include semisynthetic methodologies (RNA synthetic methods and derivatization of RNA); RNA structure determination (X-ray crystallography, NMR, EM); techniques for monitoring RNA conformation and dynamics (solution...
RNA-Ligand Interactions, Part B focuses on molecular biology methods. Major topics covered include: solution probe methods, tethered-probe methodologies, in vitro affinity selection methodologies, genetic methodologies for detecting RNA-protein interactions, protein engineering methodologies useful for RNA-prot...
RNA is an important therapeutic target but information about RNA-ligand interactions is limited. Here, we report a screening method that probes over 3,000,... T Tran,MD Disney - 《Nature Communications》 被引量: 31发表: 2012年 Analysis of RNA folding by native polyacrylamide gel electrophoresis...
The ability to accurately predict the binding site, binding pose, and binding affinity for ligand-RNA binding is important for RNA-targeted drug design. Here, we describe a new computational method, RLDOCK, for predicting the binding site and binding pose for ligand-RNA binding. By developing ...
High-affinity, high-specificity RNA ligands for reverse transcriptase from feline immunodeficiency virus (FIV) were isolated from an RNA library by the SELEX (Systematic Evolution of Ligands by EXponential enrichment) procedure. The selected RNA ligands bound to FIV reverse transcriptase with dissociation...
[1] Zhou Y, Jiang YW, Chen SJ.SPRank - A Knowledge-Based Scoring Function for RNA-Ligand Pose Prediction and Virtual Screening.Journal of Chemical Theory and Computation.2024 Aug. doi: 10.1021/acs.jctc.4c00681. Releases1 dataLatest
Influence of Dimethylsulfoxide on RNA Structure and Ligand Bindingdoi:10.1021/ac402038tDimethyl sulfoxide (DMSO) is widely used as a cosolvent to solubilize hydrophobic compounds in RNA-ligand binding assays. Although it is known that high concentrations of DMSO (>75%) can significantly affect RNA...
ligand binding to RNA [36]. The novel chemical probing methodology, namely Light-Activated Structural Examination of RNA (LASER), has been recently developed to inform on RNA solvent accessibility, and as such provides an additional layer of structural information, particularly in RNA-ligand ...
We report for the first time the development of a knowledge-based scoring function to predict RNAligand interactions (DrugScoreRNA). Based on the formalism of the DrugScore approach, distance-dependent pair potentials are derived from 670 crystallographically determined nucleic acidligand and protein ...
Virus-derived double-stranded RNA molecules containing a triphosphate group at the 5' end are natural ligands of Retinoic acid-inducible gene I (RIG-I). The cellular pathways and proteins induced by RIG-I are an essential part of the innate immune response against viral infections. Starting from...