A5101620864- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- RNA modifications and cancer
- DNA and Nucleic Acid Chemistry
- DNA Repair Mechanisms
- Viral Infections and Immunology Research
- HIV Research and Treatment
- Advanced biosensing and bioanalysis techniques
- Chemical Synthesis and Analysis
- Computational Drug Discovery Methods
- Composite Material Mechanics
- Advanced Mathematical Modeling in Engineering
- Advanced Numerical Methods in Computational Mathematics
- HIV/AIDS drug development and treatment
- Biosensors and Analytical Detection
- bioluminescence and chemiluminescence research
- Bacterial Genetics and Biotechnology
- Advanced Chemical Sensor Technologies
Duke University
2018-2020
Duke Medical Center
2018-2020
Duke University Hospital
2018-2020
University of Chicago
2020
National Taiwan University
2001-2019
CSIRO Oceans and Atmosphere
2015
The HIV-1 Rev response element (RRE) RNA mediates the nuclear export of intron containing viral RNAs by forming an oligomeric complex with protein Rev. Stem IIB and nearby stem II three-way junction nucleate oligomerization through cooperative binding two molecules. Conformational flexibility at this RRE region has been shown to be important for binding. However, nature remained elusive. Here, using NMR relaxation dispersion, including a new strategy directly observing transient...
Low-abundance short-lived non-native conformations referred to as excited states (ESs) are increasingly observed in vitro and implicated the folding biological activities of regulatory RNAs. We developed an approach for assessing relative abundance RNA ESs within functional cellular context. Nuclear magnetic resonance (NMR) spectroscopy was used estimate degree which substitution mutations bias conformational equilibria toward inactive ES vitro. The activity ES-stabilizing mutants indirect...
Identifying small molecules that selectively bind an RNA target while discriminating against all other cellular RNAs is important challenge in RNA-targeted drug discovery. Much effort has been directed toward identifying drug-like minimize electrostatic and stacking interactions lead to nonspecific binding of aminoglycosides intercalators many stem–loop RNAs. Many such compounds have reported inhibit their activities. However, engagement selectivity assays are not routinely performed, it...
N6-methyladenosine (m6A) is a ubiquitous RNA post-transcriptional modification found in coding as well non-coding RNAs. m6A has also been viral RNAs where it proposed to modulate host-pathogen interactions. Two sites have reported the HIV-1 Rev response element (RRE) stem IIB, one of which was shown enhance binding protein and export. However, because these not observed other studies mapping RNA, their significance remains be firmly established. Here, using optical melting experiments, NMR...
RecA is essential to recombinational DNA repair in which filaments mediate the homologous pairing and strand exchange. Both filament assembly subsequent exchange are directional. Here, we demonstrate that polarity of embedded within even absence ATP hydrolysis, at least over short segments. Using single-molecule tethered particle motion, show successful presence proceeds with a 5'-to-3' polarity, as demonstrated previously. prepared ATPγS also exhibit progress exchange, suggesting not...
Abstract This study demonstrates, for the first time, that presence of suspended solids in waste‐activated sludge interferes with adenosine triphosphate (ATP) bioluminescence tests. The subject to acid/alkaline treatment represented test sample. Without consideration effect solid concentrations, one would erroneously estimate density levels heterotrophic bacteria using ATP data. A light blockage model was proposed evaluate luminescence reading without interference solids. © 2001 John Wiley...
Abstract N 6 -methyladenosine (m A) is a ubiquitous RNA post-transcriptional modification found in coding as well non-coding RNAs. m A has also been viral RNAs where it proposed to modulate host-pathogen interactions. Two sites have reported the HIV-1 Rev response element (RRE) stem IIB, one of which was shown enhance binding protein and export. However, because these not observed other studies mapping RNA, their significance remains be firmly established. Here, using optical melting...
ABSTRACT N 6 -methyladenosine (m A) is a post-transcriptional modification that controls gene expression by recruiting proteins to RNA sites. The also slows biochemical processes through mechanisms are not understood. Using NMR relaxation dispersion, we show m A pairs with uridine the methylamino group in anti conformation form Watson-Crick base pair transiently exchanges on millisecond timescale singly hydrogen-bonded low-populated (1%) mismatch-like which syn. This ability rapidly...
Summary Many regulatory RNAs undergo changes in their structure from the dominant ground-state (GS) toward short-lived low-abundance ‘excited-states’ (ES) that reorganize local elements of secondary structure. ESs are increasingly observed vitro and implicated folding biological activities as targets for developing therapeutics. However, whether these also form with comparable abundance within complex cellular environment remains unknown. Here, we developed an approach assessing relative...
ABSTRACT The HIV-1 Rev response element (RRE) RNA mediates the nuclear export of intron containing viral RNAs by forming an oligomeric complex with protein Rev. Stem IIB and nearby stem II three-way junction nucleate oligomerization through cooperative binding two molecules. Conformational flexibility at this RRE region has been shown to be important for binding. However, nature remained elusive. Here, using NMR relaxation dispersion, including a new strategy directly observing transient...
ABSTRACT Identifying small molecules that selectively bind a single RNA target while discriminating against all other cellular RNAs is an important challenge in RNA-targeted drug discovery. Much effort has been directed toward identifying drug-like minimize electrostatic and stacking interactions lead to non-specific binding of aminoglycosides intercalators variety RNAs. Many such compounds have reported inhibit their activities, however the ability discriminate stem-loops commonly found...