NMR chemical exchange as a probe for ligand-binding kinetics in a theophylline-binding RNA aptamer

Journal of the American Chemical Society

Volumn 131, Issue 14, 2009, Pages 5052-5053

  Latham, Michael P ^a,b   Zimmermann, Grant R ^a,c   Pardi, Arthur ^a  

^a UNIVERSITY OF COLORADO   (United States)

^b UNIVERSITY OF TORONTO   (Canada)

^c Horizon CombinatoRx   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVE SPECIES; BINDING COMPLEXES; CHEMICAL EXCHANGE; CONFORMATIONAL SELECTION; CROSS PEAKS; DYNAMIC EQUILIBRIA; IMINO PROTONS; KINETIC DATA; LIGAND BINDING; LIGAND-RECEPTOR INTERACTIONS; NMR CHEMICAL SHIFTS; NMR SPECTROSCOPY; RNA APTAMER; WEAK BINDING;

CHEMICAL SHIFT; LIGANDS; NUCLEAR MAGNETIC RESONANCE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; POLYMORPHISM; RATE CONSTANTS; RNA;

NUCLEIC ACIDS;

APTAMER; MAGNESIUM; PEPTIDE; RNA; THEOPHYLLINE; LIGAND;

ARTICLE; BASE PAIRING; BINDING AFFINITY; BINDING KINETICS; CHEMICAL STRUCTURE; CONFORMATIONAL TRANSITION; DISSOCIATION; LIGAND BINDING; MOLECULAR INTERACTION; MOLECULAR MECHANICS; MOLECULAR PROBE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PROTEIN FOLDING; BINDING SITE; CHEMISTRY; CONFORMATION; KINETICS; METABOLISM; NUCLEAR MAGNETIC RESONANCE; PROCEDURES;

APTAMERS, NUCLEOTIDE; BINDING SITES; KINETICS; LIGANDS; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; NUCLEIC ACID CONFORMATION; THEOPHYLLINE;

EID: 67849097652     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja900695m     Document Type: Article

References (17)

1. Misra, V. K.; Draper, D. E. Biopolymers 1998, 48, 113-135.
2. Woodson, S. A. Curr. Opin. Chem. Biol. 2005, 9, 104-109.
3. Jenison, R. D.; Gill, S. C.; Pardi, A.; Polisky, B. Science 1994, 263, 1425- 1429.
4. Zimmermann, G. R.; Jenison, R. D.; Wick, C. L.; Simorre, J. P.; Pardi, A. Nat. Struct. Biol. 1997, 4, 644-649.
5. Jucker, F. M.; Phillips, R. M.; McCallum, S. A.; Pardi, A. Biochemistry 2003, 42, 2560-2567.
6. Kaplan, J. I.; Fraenkel, G. NMR of Chemically Exchanging Systems; Academic Press: New York, 1980.
7. Jeener, J.; Meier, B. H.; Bachmann, P.; Ernst, R. R. J. Chem. Phys. 1979, 71, 4546-4553.
8. Ernst, R. R.; Bodenhausen, G.; Wokaun, A. Principles of Nuclear Magnetic Resonance in One and Two Dimensions; Oxford University Press: Oxford, U.K., 1987.
9. (a) Fejzo, J.; Westler, W. M.; Macura, S.; Markley, J. L. J. Am. Chem. Soc. 1990, 112, 2574-2577.
10. (b) Macura, S.; Westler, W. M.; Markley, J. L. Methods Enzymol. 1994, 239, 106-144.
11. Farrow, N. A.; Zhang, O. W.; Formankay, J. D.; Kay, L. E. J. Biomol. NMR 1994, 4, 727-734.
12. Leulliot, N.; Varani, G. Biochemistry 2001, 40, 7947-7956.
13. Williamson, J. R. Nat. Struct. Biol. 2000, 7, 834-837.
14. Tsai, C. J.; Kumar, S.; Ma, B. Y.; Nussinov, R. Protein Sci. 1999, 8, 1181- 1190.
15. Porschke, D. Biophys. J. 1998, 75, 528-537.
16. Sugase, K.; Dyson, H. J.; Wright, P. E. Nature 2007, 447, 1021-1025.
17. Pontius, B. W. Trends Biochem. Sci. 1993, 18, 181-186.