Asparaginyl-tRNA synthetase pre-transfer editing assay

Current Drug Discovery Technologies

Volumn 8, Issue 1, 2011, Pages 66-75

  Danel, Franck ^a   Caspers, Patrick ^a,d   Nuoffer, Claude ^a   Härtlein, Michael ^b   Kron, Michael A ^c   Page, Malcolm G P ^a  

^a BASILEA PHARMACEUTICA INTERNATIONAL LTD   (Switzerland)

^b INSTITUT LAUE LANGEVIN   (France)

^c MEDICAL COLLEGE OF WISCONSIN   (United States)

^d ACTELION PHARMACEUTICALS LTD   (Switzerland)

Author keywords

Aparaginyl tRNA synthetase; Brugia malayi; Editing assay; Filaria; L aspartate beta hydroxamate; Malachite Green; Staphylococcus epidermidis; Thiolate

Indexed keywords

AMINO ACID TRANSFER RNA LIGASE; ASPARAGINE TRANSFER RNA; ASPARTIC ACID BETA HYDROXAMIC ACID; CHLORPHENOTANE; CYSTEINE; MALACHITE GREEN; PHOSPHATE; PYROPHOSPHATE;

ARTICLE; BRUGIA MALAYI; CONTROLLED STUDY; ENZYME ACTIVITY; ENZYME ASSAY; HIGH THROUGHPUT SCREENING; NONHUMAN; PRIORITY JOURNAL; PROTEIN TRANSPORT; RNA EDITING; SENSITIVITY ANALYSIS; STAPHYLOCOCCUS EPIDERMIDIS;

AMINO ACIDS; AMINO ACYL-TRNA SYNTHETASES; ANIMALS; ASPARAGINE; ASPARTATE-TRNA LIGASE; BRUGIA MALAYI; COLORING AGENTS; CYSTEINE; DRUG DISCOVERY; HIGH-THROUGHPUT SCREENING ASSAYS; PLANT EXTRACTS; RNA EDITING; RNA, TRANSFER; RNA, TRANSFER, AMINO ACYL; ROSANILINE DYES; STAPHYLOCOCCUS EPIDERMIDIS;

EID: 79951699053     PISSN: 15701638     EISSN: None     Source Type: Journal    
DOI: 10.2174/157016311794519947     Document Type: Article

References (48)

1. Cusack S, Berthet-Colominas C, Haertlein M, Nassar N, Leberman R. A second class of synthetases structure revealed by Xray analysis of E. coli seryl-tRNA synthetases at 2.5 A. Nature 1990;347:249-55.
2. Cusack S. Aminoacyl-tRNA synthetases. Curr Opin Struct Biol 1997;7:881-9. (Pubitemid 28025117)
3. Beebe K, Ribas de Pouplana L, Schimmel P. Elucidation of tRNA-dependent editing by a class II tRNA synthetase and significance for cell viability. EMBO J 2003;22:668-75. (Pubitemid 36193611)
4. Nangle LA, De Crecy Lagard V, Doring V, Schimmel P. Genetic code ambiguity. Cell viability related to the severity of editing defects in mutant tRNA synthetases. J Biol Chem 2002;277:45729-33. (Pubitemid 35417548)
5. Nangle LA, Motta CM, Schimmel P. Global effects of mistranslation from an editing defect in mammalian cells. Chem Biol 2006;13:1091-100. (Pubitemid 44557071)
6. Bacher JM, de Crecy-Lagard V, Schimmel P. Inhibited cell growth and protein functional changes from an editing-defective tRNA synthetase. Proc Natl Acad Sci USA 2005;102:1697-701. (Pubitemid 40209230)
7. Park SG, Schimmel P, Kim S. Aminoacyl tRNA synthetases and their connections to disease. Proc Natl Acad Sci USA 2008;105:11043-49.
8. Giegé R. The early history of tRNA recognition by aminoacyltRNA synthetases. J Biosci 2006;31:477-88. (Pubitemid 44747516)
9. Jakubowski H. Valyl-tRNA synthetase from yellow lupin seeds. Instability of enzyme-bound noncognate adenylates versus cognate adenylate. FEBS Lett 1978;95:235-8.
10. Jakubowski H. Valyl-tRNA synthetase form yellow lupin seeds: hydrolysis of the enzyme-bound noncognate aminoacyl adenylate as a possible mechanism of increasing specificity of the aminoacyltRNA synthetase. Biochemistry 1980;19:5071-8.
11. Jakubowski H, Fersht AR. Alternative pathways for editing noncognate amino acids by aminoacyl-tRNA synthetases. Nucleic Acids Res 1981;9:3105-17.
12. Jakubowski H. Proofreading in vivo: editing of homocysteine by methionyl-tRNA synthetase in Escherichia coli. Proc Natl Acad Sci USA 1990;87:4504-8.
13. Jakubowski H. Proofreading in vivo. Editing of homocysteine by aminoacyl-tRNA synthetases in Escherichia coli. J Biol Chem 1995;270:17672-3.
14. Jakubowski H. Aminoacyl thioester chemistry of class II aminoacyl-tRNA synthetases. Biochemistry 1997;36:11077-85. (Pubitemid 27398427)
15. Jakubowski H. Misacylation of tRNALys with noncognate amino acids by lysyl-tRNA synthetase. Biochemistry 1999;38:8088-93.
16. Mascarenhas AP, An S, Rosen AE, Martinis SA, Musier-Forsyth K. Fidelity mechanisms of the aminoacyl-trna synthetases. Protein Engineering: Nucleic Acids Mol Biol 2009:22: 155-203.
17. Ling J, Reynolds N, Ibba M. Aminoacyl-tRNA synthesis and translational quality control. Annu Rev Microbiol 2009;63:61-78.
18. Tardif KD, Horowitz J. Transfer RNA determinants for translational editing by Escherichia coli valyl-tRNA synthetase. Nucleic Acids Res 2002;30:2538-45. (Pubitemid 34619007)
19. Ahel I, Korencic D, Ibba M, Soll, D. Trans-editing of mischarged tRNAs. Proc Natl Acad Sci USA 2003;100:15422-27. (Pubitemid 38021005)
20. Fukunaga R, Yokoyama S. Structural basis for substrate recognition by the editing domain of isoleucyl-tRNA synthetase. J Mol Biol 2006;359:901-12. (Pubitemid 43842049)
21. Fukunaga R, Fukai S, Ishitani R, Nureki, O, Yokoyama, S. Crystal structures of the CP1 domain from Thermus thermophilus isoleucyl-tRNA synthetase and its complex with L-valine. J Biol Chem 2004;279:8396-402. (Pubitemid 38294732)
22. Lincecum TL, Tukalo M, Yaremchuk A, et al. Structural and mechanistic basis of pre-and posttransfer editing by leucyl-tRNA synthetase. Mol Cell 2003;11:951-63. (Pubitemid 36566317)
23. Ruan B, Soll D. The bacterial YbaK protein is a Cys-tRNAPro and Cys-tRNA Cys deacylase. J Biol Chem 2005;280:25887-91. (Pubitemid 40962300)
24. Wong FC, Beuning PJ, Nagan, M, Shiba K. Musier-Forsyth K. Functional role of the prokaryotic proline-tRNA synthetase insertion domain in amino acid editing. Biochemistry 2002;41:7108-115. (Pubitemid 34575684)
25. Hati S, Ziervogel B, Sternjohn J, et al. Pretransfer editing by class II prolyl-tRNA synthetase: role of aminoacylation active site in "selective release" of noncognate amino acids. J Biol Chem 2006;281:27862-72. (Pubitemid 44414498)
26. An S, Musier-Forsyth K. Trans-editing of Cys-tRNAPro by Haemophilus Influenza YbaK protein. J Biol Chem 2004;279:42359-62. (Pubitemid 39372116)
27. Schimmel P, Tao J, Hill J. Aminoacyl tRNA synthetases as targets for new anti-infectives. FASEB J 1998;12:1599-609. (Pubitemid 28553655)
28. Pohlmann J, Brötz-Oesterhelt H. New aminoacyl-tRNA synthetase inhibitors as antibacterial agents. Curr Drug Targets Infect Disord 2004;4:261-72. (Pubitemid 39539181)
29. Ochsner UA, Sun X, Jarvis T, Critchley I, Janjic N. AminoacyltRNA synthetases: essential and still promising targets for new anti-infective agents. Expert Opin Investig Drugs 2007;16:573-93 (Pubitemid 46729098)
30. Kim S, Lee SW, Choi EC, Choi SY. Aminoacyl-tRNA synthetases and their inhibitors as a novel family of antibiotics. Appl Microbiol Biotechnol 2003;61:278-88. (Pubitemid 36683523)
31. Kron M, Marquard K, Hartlein M, Price S, Leberman R. An immunodominant antigen of Brugia malayi is an asparaginyl-tRNA synthetase. FEBS Lett 1995;374:122-24.
32. Kron M, Kuhn L, Sanschagrin P, Haertlein M, Grotli M, Cusack. S. Strategies for Antifilarial Drug Development. J Parasitol 2003;89: S226-35.
33. Sukuru C, Milev Y, Marsh L C, et al. Discovering new classes of Brugia malayi asparaginyl-tRNA synthetase inhibitors and relating specificity to conformational changes. J Comput Aided Mol des 2006;20:159-78. (Pubitemid 44269786)
34. Luzhetskyy A, Pelzer S, Bechthold A. The future of natural products as a source of new antibiotics. Curr Opin Investig Drugs 2007;8:608-13. (Pubitemid 47205245)
35. Splan KE, Musier-Forsyth K, Boniecki MT, Martinis SA. In vitro assays for the determination of aminoacyl-tRNA synthetase editing activity. Methods 2008;44:119-28. (Pubitemid 351172813)
36. Rumsfeld J, Ziegelbauer K, Spaltmann F. High-throughput assay for inorganic pyrophosphatases using the cytosolic enzymes of Saccharomyces cerevisiae and human as an example. Protein Expr Purif 2000;18:303-9. (Pubitemid 30213447)
37. Cogan EB, Birrell GB, Griffith OH. A robotics-based automated assay for inorganic and organic phosphates. Anal Biochem 1999;271:29-35. (Pubitemid 29287847)
38. Hawkes TR. Assay for detecting inhibitors of aminoacyl-tRNA synthetases. 1997 US Patent 5, 985, 630, November 16, 1999.
39. Welsh KM, Jakobyansky AJ. Springs B, Cooperman BS. Catalytic specificity of yeast inorganic pyrophosphatase for magnesium ion as cofactor. An analysis of divalent metal ion and solvent isotope effects on enzyme function. Biochemistry 1983;22:2243-8.
40. rd ed. Cold Spring Harbor Laboratory Press: Cold Spring Harbor, New York 2001.
41. Beaulande M, Tarbouriech N, Hartlein M. Human cytosolic asparaginyl-tRNA synthetase: cDNA sequence, functional expression in Escherichia coli and characterization as human autoantigen. Nucleic Acids Res 1998;26:521-4. (Pubitemid 28291578)
42. Kron M, Petridis M, Milev Y, Leykam J, Hartlein M. Expression, localization and alternative function of cytoplasmic asparaginyltRNA synthetase in Brugia malayi. Mol Biochem Parasitol 2003;129:33-9. (Pubitemid 36703220)
43. Berthet-Colominas C, Seignovert L, Härtlein M, Grotli M, Cusack S, Leberman R. The crystal structure of asparaginyl-tRNA synthetase from Thermus thermophilus and its complexes with ATP and asparaginyl-adenylate: the mechanism of discrimination between asparagine and aspartic acid. EMBO J 1998;17:2947-60.
44. Zhang JH, Chen T, Nguyen SH, Oldenburg KR. A high-throughput homogeneous assay for reverse transcriptase using generic reagents and time-resolved fluorescence detection. Anal Biochem 2000;281:182-6. (Pubitemid 30346496)
45. Ling J, Roy H, Ibba M. Mechanism of tRNA-dependent editing in translational quality control. Proc Natl Acad Sci USA 2007;104:72-7. (Pubitemid 46067986)
46. Lea PJ, Fowden L. Amino acid specificities of asparaginyl-, aspartyl-and glutaminyl-tRNA synthetases isolated from higher plants. Phytochemistry 1973;12:1903-12.
47. Iwasaki W, Sekine S, Kuroishi C, Kuramitsu S, Shirouzu M, Yokoyama S. Structural basis of the water-assisted asparagine recognition by asparaginyl-tRNA synthetase. J Mol Biol 2006;360:329-42. (Pubitemid 44202311)
48. Jakubowski H. The synthetic/editing active site of an aminoacyltRNA synthetase: evidence for binding of thiols in the editing subsite. Biochemistry 1996;35:8252-9. (Pubitemid 26234927)