A peptide from the extension of Lys-tRNA synthetase binds to transfer RNA and DNA

Peptides

Volumn 24, Issue 7, 2003, Pages 987-998

  Yiadom, Kwabena P A B ^a   Hammamieh, Rasha ^a,c   Ukpabi, Nkoli ^b   Tsang, Pearl ^b   Yang, David C H ^a  

^a GEORGETOWN UNIVERSITY   (United States)

^b UNIVERSITY OF CINCINNATI   (United States)

^c Walter Reed Army Institute for Research   (United States)

Author keywords

Circular dichroism; Elongation factor 1 ; Magnesium ion; Nuclear magnetic resonance; Nucleic acid binding peptides; RNA world; tRNA; tRNA synthetase

Indexed keywords

DNA; ELONGATION FACTOR 1ALPHA; MAGNESIUM ION; SYNTHETASE; TRANSFER RNA;

ALPHA HELIX; ARTICLE; BINDING AFFINITY; CIRCULAR DICHROISM; CONCENTRATION RESPONSE; ENZYME ACTIVITY; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN RNA BINDING;

BACTERIA (MICROORGANISMS); EUKARYOTA;

EID: 0141518434     PISSN: 01969781     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0196-9781(03)00188-8     Document Type: Article

References (38)

1. Agou F., Yang Y., Gesquiere J.-C., Waller J.-P., Guittet E. Polyanion-induced α-helical structure of a synthetic 23-residue peptide representing the lysine-rich segment of the N-terminal extension of yeast cytoplasmic aspartyl-tRNA synthetase. Biochemistry. 34:1995;569-576.
2. Bergstrom R.C., Mayfield L.D., Corey D.R. A bridge between the RNA and protein worlds? Accelerating delivery of chemical reactivity to RNA and DNA by a specific short peptide (AAKK)(4). Chem. Biol. 8:2001;199-205.
3. de Pouplana L.R., Schimmel P. A view into the origin of life: aminoacyl-tRNA synthetases. Cell Mol. Life Sci. 57:2000;865-870.
4. Delarue M., Poterszman A., Nikonov S., Garber M., Moras D., Thierry J.C. Crystal structure of a prokaryotic aspartyl tRNA-synthetase. Embo. J. 13:1994;3219-3229.
5. Dyson H.J., Wright P.E. Defining solution conformations of small linear peptides. Annu. Rev. Biophys. Biophys. Chem. 20:1991;519-538.
6. Escalante C., Yang D.C.H. Expression of human aspartyl-tRNA synthetase in Escherichia coli: Functional analysis of the N-terminal putative amphiphilic helix. J. Biol. Chem. 268:1993;6014-6023.
7. fMet. Steady-state fluorescence of tRNA with single fluorophore. Biochemistry. 25:1986;529-539.
8. Francin M., Kaminska M., Kerjan P., Mirande M. The N-terminal domain of mammalian Lysyl-tRNA synthetase is a functional tRNA-binding domain. J. Biol. Chem. 277:2002;1762-1769.
9. Francin M., Mirande M. Functional dissection of the eukaryotic-specific tRNA-interacting factor of Lysyl-tRNA synthetase. J. Biol. Chem. 278:2003;1472-1479.
10. Frankel A.D. Fitting peptides into the RNA world. Curr. Opin. Struct Biol. 10:2000;332-340.
11. Frugier M., Moulinier L., Giege R. A domain in the N-terminal extension of class IIb eukaryotic aminoacyl- tRNA synthetases is important for tRNA binding. Embo. J. 19:2000;2371-2380.
12. Garnier JGJ-F, Robson B. GOR secondary structure prediction method, version IV. In: Doolittle RF, editor. Methods in enzymology, vol. 266. New York: Academic Press; 1996, p. 540-53.
13. Grosshans H., Simos G., Hurt E. Review: transport of tRNA out of the nucleus-direct channeling to the ribosome? J. Struct Biol. 129:2000;288-294.
14. Hammamieh R., Yang D.C.H. Magnesium ion-mediated binding to tRNA by an amino-terminal peptide of a class II tRNA synthetase. J. Biol. Chem. 276:2001;428-433.
15. Ibba M., Soll D. Aminoacyl-tRNA synthesis. Annu. Rev. Biochem. 69:2000;617-650.
16. Jacobo-Molina A., Peterson R., Yang D.C.H. cDNA sequence, predicted primary structure and evolving amphiphilic helix of human aspartyl-tRNA synthetase. J. Biol. Chem. 264:1989;16608-16612.
17. Lazard M., Mirande M., Waller J.P. Purification and characterization of the isoleucyl-tRNA synthetase component from the high-molecular weight complex from sheep liver: a hydrophobic metalloprotein. Biochemistry. 24:1985;5099-5106.
18. Merutka G., Dyson H.J., Wright P.E. 'Random coil' 1H chemical shifts obtained as a function of temperature and trifluoroethanol concentration for the peptide series GGXGG. J. Biomol. NMR. 5:1995;14-24.
19. Millhauser G.L., Stenland C.J., Hanson P., Bolin K.A., van de Ven F.J. Estimating the relative populations of 3(10)-helix and alpha-helix in Ala-rich peptides: a hydrogen exchange and high field NMR study. J. Mol. Biol. 267:1997;963-974.
20. Mirande M. Aminoacyl-tRNA synthetase family from prokaryotes and eukaryotes: structural domains and their implications. Prog. Nucleic Acid. Res. Mol. Biol. 40:1991;95-142.
21. Nathanson L., Xia T., Deutscher M.P. Nuclear protein synthesis: a re-evaluation. Rna. 9:2003;9-13.
22. Negrutskii B.S., Stapulionis R., Deutscher M.P. Supramolecular organization of the mammalian translation system. Proc. Natl Acad. Sci. U. S. A. 91:1994;964-968.
23. North G. Back to the RNA world and beyond. Nature. 328:1987;18-19.
24. Onesti S., Miller A.D., Brick P. The crystal structure of the lysyl-tRNA synthetase. Structure. 3:1995;163-176.
25. Park S.G., Jung K.H., Lee J.S., Jo Y.J., Motegi H., Kim S.et al. Precursor of pro-apoptotic cytokine modulates aminoacylation activity of tRNA synthetase. J. Biol. Chem. 274:1999;16673-16676.
26. Perczel A., Park K., Fasman G.D. Analysis of CD spectrum of proteins using the convex constraint algorithm: a practical guide. Anal. Biochem. 203:1992;83-93.
27. Reed V.S., Wastney M., Yang D.C.H. Mechanisms of the transfer of aminoacyl-tRNA from aminoacyl-tRNA synthetase to the elongation factor 1α J. Biol. Chem. 269:1994;32932-32936.
28. Reed V.S., Yang D.C.H. Characterization of a novel N-terminal peptide in human aspartyl-tRNA synthetase. Roles in the transfer of aminoacyl-tRNA from aminoacyl-tRNA synthetase to the elongation factor 1α J. Biol. Chem. 269:1994;32937-32941.
29. Rho S.B., Lee K.H., Kim J.W., Shiba K., Jo Y.J., Kim S. Interaction between human tRNA synthetases involves repeated sequence elements. Proc. Natl. Acad. Sci. U. S. A. 93:1996;10128-10133.
30. Ruff M., Krishnaswamy S., Boeglin M., Poterszman A., Mitschler A., Podjarny A.et al. Class II aminoacyl-tRNA synthetases: crystal structure of yeast aspartyl-tRNA synthetase complexed with tRNA(Asp). Science. 252:1991;1682-1689.
31. Schimmel P., Kelley S.O. Exiting an RNA world. Nat. Struct. Biol. 7:2000;5-7.
32. Schimmel P., Wang C.C. Getting tRNA synthetases into the nucleus. Trends Biochem Sci. 24:1999;127-128.
33. 4-tetraphosphate by lysyl-tRNA synthetase and a multi-enzyme complex of aminoacyl-tRNA synthetases from rat liver. J. Biol. Chem. 260:1985;5286-5289.
34. Wakasugi K., Schimmel P. Highly differentiated motifs responsible for two cytokine activities of a split human tRNA synthetase. J. Biol. Chem. 274:1999;23155-23159.
35. Wishart D.S., Sykes B.D., Richards F.M. Relationship between nuclear magnetic resonance chemical shift and protein secondary structure. J. Mol. Biol. 222:1991;311-333.
36. Wüthrich K. NMR of proteins and nucleic acids. New York: Wiley, 1986.
37. Yang D.C.H. Mammalian aminoacyl-tRNA synthetases. Curr Top Cell Regul. 34:1996;101-136.
38. Yiadom K, Yang DCH. Nucleic acid binding by highly charged peptides from a Class II tRNA synthetase and elongation factor 1α. FASEB J 2002:LB137.