Multiple conformational states of the hammerhead ribozyme, broad time range of relaxation and topology of dynamics

Nucleic Acids Research

Volumn 28, Issue 22, 2000, Pages 4428-4434

  Menger, Marcus ^a   Eckstein, Fritz ^b   Porschke, Dietmar ^a,b  

^a MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

^b MAX PLANCK INSTITUTE OF EXPERIMENTAL MEDICINE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

2 AMINOPURINE; CALCIUM ION; MAGNESIUM; MAGNESIUM ION; RIBOZYME;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; CATALYSIS; CONFORMATIONAL TRANSITION; ELECTRIC POTENTIAL; ENZYME ACTIVITY; ENZYME ASSAY; ENZYME CONFORMATION; ENZYME KINETICS; EQUILIBRIUM CONSTANT; FLUORESCENCE; PRIORITY JOURNAL; PROTEIN SECONDARY STRUCTURE; STRUCTURE ACTIVITY RELATION;

EID: 0034669494     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/28.22.4428     Document Type: Article

References (41)

1. The structure, function and application of the hammerhead ribozyme
2. Structure, folding and catalysis of the small nucleolytic ribozymes
3. Nucleic acid enzymes
4. The hammerhead, hairpin and VS ribozymes are catalytically proficient in monovalent cations alone
5. Crystallographic structures of the hammerhead ribozyme - Relationship to ribozyme folding and catalysis
6. The structural basis of hammerhead ribozyme self-cleavage
7. RNA catalysis
8. A three-dimensional model for the hammerhead ribozyme based on fluorescence measurements
9. Ion-induced folding of the hammerhead ribozyme - A fluorescence resonance energy transfer study
10. RNA folding and misfolding of the hammerhead ribozyme
11. Hammerhead ribozyme kinetics
12. Cooperative non-enzymic base recognition III. Kinetics of the helix-coil transition of the oligoribouridylic-oligoriboadenylic acid system and of oligoriboadenylic acid alone at acid pH
13. Relaxation kinetics of dimer formation by self complementary oligonucleotides
14. 2+- dependent conformational changes in the hammerhead ribozyme
15. Importance of exocyclic base functional groups of central core guanosines for hammerhead ribozyme activity
16. A temperature-jump apparatus for fluorescence measurements
17. The conformation of single-stranded oligonucleotides and of oligonucleotide-oligopeptide complexes from their rotation relaxation in the nanosecond time range
18. Orientation relaxation of DNA restriction fragments and the internal mobility of the double helix
19. Time resolved analysis of macromolecular structures during reactions by stopped-flow electrooptics
20. Numbering system for the hammerhead
21. Three-dimensional structure of a hammerhead ribozyme
22. Thiophosphate interference experiments locate phosphates important for the hammerhead RNA self-cleavage reaction
23. Dynamics of the RNA hairpin GNRA tetraloop
24. ++ binding to oligonucleotides. Inner sphere complexes as markers for recognition?
25. 2+-polynucleotide interactions
26. Relaxation methods
27. Exposing the kinetic traps in RNA folding
28. RNA folding at millisecond intervals by synchrotron hydroxyl radical footprinting
29. RNA tertiary folding monitored by fluorescence of covalently attached pyrene
30. A re-investigation of the thio effect at the hammerhead cleavage site
31. Spectroscopic evidence for inner-sphere coordination of metal ions to the active site of a hammerhead ribozyme
32. Identification and characterization of a novel high affinity metal-binding site in the hammerhead ribozyme
33. Complete identification of nonbridging phosphate oxygens involved in hammerhead cleavage
34. Identification of the hammerhead ribozyme metal ion binding site responsible for rescue of the deleterious effect of the cleavage site phosphorothioate
35. Does a single metal ion bridge the A-9 and scissile phosphate groups in the catalytically active hammerhead ribozyme structure?
36. Evidence for a hydroxide ion bridging two magnesium ions at the active site of the hammerhead ribozyme
37. Probing the binding of Tb(III) and Eu(III) to the hammerhead ribozyme using luminescence spectroscopy
38. Relaxations-spektrometrische Untersuchungen schneller Reaktionen von ATP in wassriger Losung
39. Kinetics and mechanism of reactions of main group metal ions with biological carriers
40. Magnesium ion inner sphere complex in the anticodon loop of phenylalanine transfer ribonucleic acid