A5047073489- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- RNA Research and Splicing
- DNA and Nucleic Acid Chemistry
- Advanced biosensing and bioanalysis techniques
- Bacterial Genetics and Biotechnology
- Chemical Synthesis and Analysis
- Bacteriophages and microbial interactions
- Enzyme Structure and Function
- Biochemical and Molecular Research
- Genomics and Phylogenetic Studies
- RNA Interference and Gene Delivery
- Glycosylation and Glycoproteins Research
- RNA regulation and disease
- Microbial Natural Products and Biosynthesis
- Genomics and Chromatin Dynamics
- Biotin and Related Studies
- Carbohydrate Chemistry and Synthesis
- Fluorine in Organic Chemistry
- Hepatitis C virus research
- Mass Spectrometry Techniques and Applications
- CRISPR and Genetic Engineering
- Protein Structure and Dynamics
- X-ray Diffraction in Crystallography
- Synthetic Organic Chemistry Methods
National Heart Lung and Blood Institute
2016-2025
National Institutes of Health
2013-2024
University of North Carolina at Chapel Hill
2024
Cancer Institute (WIA)
2024
National Cancer Institute
1996-2024
Government of the United States of America
2022
Fred Hutch Cancer Center
2002-2011
Howard Hughes Medical Institute
1994-2011
University of Washington
2009-2011
Cancer Research Center
2011
The glmS ribozyme is the only natural catalytic RNA known to require a small-molecule activator for catalysis. This functions as riboswitch, with activator-dependent cleavage regulating messenger expression. We report crystal structures of in precleavage states that are unliganded or bound competitive inhibitor glucose-6-phosphate and postcleavage state. All superimpose closely, revealing remarkably rigid contains preformed active coenzyme-binding site. Unlike other riboswitches, binds its...
This paper is a report of second round RNA-Puzzles, collective and blind experiment in three-dimensional (3D) RNA structure prediction. Three puzzles, Puzzles 5, 6, 10, represented sequences three large structures with limited or no homology previously solved molecules. A lariat-capping ribozyme, as well riboswitches complexed to adenosylcobalamin tRNA, were predicted by seven groups using RNAComposer, ModeRNA/SimRNA, Vfold, Rosetta, DMD, MC-Fold, 3dRNA, AMBER refinement. Some derived models...
RNA-Puzzles is a collective experiment in blind 3D RNA structure prediction. We report here third round of RNA-Puzzles. Five puzzles, 4, 8, 12, 13, 14, all structures riboswitch aptamers and puzzle 7, ribozyme structure, are included this the experiment. The include biological binding sites for small molecules ( S -adenosyl methionine, cyclic diadenosine monophosphate, 5-amino 4-imidazole carboxamide riboside 5′-triphosphate, glutamine) proteins (YbxF), one set describes large conformational...
The hairpin ribozyme catalyzes sequence-specific cleavage of RNA through transesterification the scissile phosphate. Vanadate has previously been used as a transition state mimic protein enzymes that catalyze same reaction. Comparison 2.2 angstrom resolution structure vanadate–hairpin complex with structures precursor and product complexes reveals rigid active site makes more hydrogen bonds to than or product. Because paucity functional groups capable general acid-base electrostatic...
Evolution is an adaptive walk through a hypothetical fitness landscape, which depicts the relationship between genotypes and of each corresponding phenotype. We constructed empirical landscape for catalytic RNA by combining next-generation sequencing, computational analysis, "serial depletion," in vitro selection protocol. By determining reaction rate constant every point mutant RNA, we demonstrated that abundance serially depleted pools correlates with biochemical activity (correlation...