The global structure of the VS ribozyme

EMBO Journal

Volumn 21, Issue 10, 2002, Pages 2461-2471

  Lafontaine, Daniel A ^a   Norman, David G ^a   Lilley, David M J ^a  

^a UNIVERSITY OF DUNDEE   (United Kingdom)

Author keywords

FRET; Metal ions; RNA catalysis; RNA folding

Indexed keywords

PHOSPHATE; RIBOZYME; UNCLASSIFIED DRUG; VS RIBOZYME;

ARTICLE; ELECTROPHORESIS; ENZYME ACTIVE SITE; ENZYME SUBSTRATE; MODEL; PRIORITY JOURNAL; PROTEIN INTERACTION; PROTEIN STRUCTURE; RNA STRUCTURE; STRUCTURE ANALYSIS;

BASE SEQUENCE; BINDING SITES; ENDORIBONUCLEASES; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; OLIGORIBONUCLEOTIDES; RNA, CATALYTIC;

EID: 0037093486     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/21.10.2461     Document Type: Article

References (51)

1. Rearrangement of a stable RNA secondary structure during VS ribozyme catalysis
2. Ionic interactions and the global conformations of the hammerhead ribozyme
3. Ion-induced folding of the hammerhead ribozyme: A fluorescence resonance energy transfer study
4. Identification of functional domains in the self-cleaving Neurospora VS ribozyme using damage selection
5. A secondary-structure model for the self-cleaving region of Neurospora VS RNA
6. Deoxynucleoside phosphoramidites - A new class of key intermediates for deoxypolynucleotide synthesis
7. Non-enzymatic cleavage and ligation of RNAs complementary to a plant virus satellite RNA
8. Fluorescence resonance energy transfer and nucleic acids
9. Self-cleaving transcripts of satellite DNA from the newt
10. Crystal structure of a hepatitis delta virus ribozyme
11. A pH controlled conformational switch in the cleavage site of the VS ribozyme substrate RNA
12. Self-cleavage of plus and minus RNAs of a virusoid and a structural model for the active sites
13. Zwischenmolekulare Energiewanderung und Fluoreszenz
14. Metal ion catalysis during the exon-ligation step of nuclear pre-mRNA splicing: Extending the parallels between the spliceosome and group II introns
15. The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
16. Use of intrinsic binding energy for catalysis by an RNA enzyme
17. Rapid formation of a solvent-inaccessible core in the Neurospora Varkud satellite ribozyme
18. An efficient ligation reaction promoted by a Varkud satellite ribozyme with extended 5′-and 3′-termini
19. The VS catalytic RNA replicates by reverse transcription as a satellite of a retroplasmid
20. 2+ binding
21. Structure, folding and activity of the VS ribozyme: Importance of the 2-3-6 helical junction
22. The A730 loop is an important component of the active site of the VS ribozyme
23. Analysis of the global conformation of branched RNA species by a combined electrophoresis and fluorescence approach
24. Nomenclature Committee of the International Union of Biochemistry: A nomenclature of junctions and branchpoints in nucleic acids. Recommendations 1994
25. Mobility of DNA in gel electrophoresis
26. Structure of the ribozyme substrate hairpin of Neurospora VS RNA: A close look at the cleavage site
27. Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates
28. Fluorescence energy transfer shows that the four-way DNA junction is a right-handed cross of antiparallel molecules
29. Folding of the hairpin ribozyme in its natural conformation achieves close physical proximity of the loops
30. General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme
31. The structural basis of ribosome activity in peptide bond synthesis
32. The location of cyanine-3 on double-stranded DNA: Importance for fluorescence resonance energy transfer studies
33. Imidazole rescue of a cytosine mutation in a self-cleaving ribozyme
34. Three-dimensional structure of a hammerhead ribozyme
35. Smaller, faster ribozymes reveal the catalytic core of Neurospora VS RNA
36. A long-range pseudoknot is required for activity of the Neurospora VS ribozyme
37. Crystal structure of a hairpin ribozyme-inhibitor complex with implications for catalysis
38. A site-specific self-cleavage reaction performed by a novel RNA in Neurospora mitochondria
39. RNA-mediated ligation of selfcleavage products of a Neurospora mitochondrial plasmid transcript
40. The crystal structure of an all-RNA hammerhead ribozyme: A proposed mechanism for RNA catalytic cleavage
41. Antigenomic RNA of human hepatitis delta virus can undergo selfcleavage
42. Functional equivalence of the uridine turn and the hairpin as building blocks of tertiary structure in the Neurospora VS ribozyme
43. Identification of phosphate groups involved in metal binding and tertiary interactions in the core of the Neurospora VS ribozyme
44. Hammerhead ribozyme kinetics
45. Two autolytic processing reactions of a satellite RNA proceed with inversion of configuration
46. Tertiary structure formation in the hairpin ribozyme monitored by fluorescence resonance energy transfer
47. Stability of hairpin ribozyme tertiary structure is governed by the interdomain junction
48. Structures of bulged three-way DNA junctions
49. Metal-ion coordination by U6 small nuclear RNA contributes to catalysis in the spliceosome
50. The folding of the hairpin ribozyme: Dependence on the loops and the junction