A tRNA circularization assay: Evidence for the variation of the conformation of the CCA end

RNA

Volumn 4, Issue 7, 1998, Pages 733-738

  Hou, Y A Ming ^a   Lipman, Richard S A ^a   Zarutskie, Jennifer A ^a  

^a THOMAS JEFFERSON UNIVERSITY   (United States)

Author keywords

Aminoacylation; E. coli tRNA(Cys); Replication; T4 RNA ligase; tRNA circularization

Indexed keywords

RNA LIGASE; TRANSFER RNA;

AMINOACYLATION; ENZYME ACTIVITY; ESCHERICHIA COLI; LETTER; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RNA STRUCTURE; YEAST;

AMINO ACYL-TRNA SYNTHETASES; BASE SEQUENCE; BINDING SITES; ESCHERICHIA COLI; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; POLYNUCLEOTIDE LIGASES; RNA, BACTERIAL; RNA, TRANSFER, CYS; VIRUS REPLICATION;

ESCHERICHIA COLI;

EID: 0031869540     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1017/S1355838298980281     Document Type: Letter

References (32)

1. Altman S, Kirsebom L, Talbot S. 1995. Recent studies of RNase P. In: Söll D, RajBhandary UL, eds. tRNA: Structure, biosynthesis, and function. Washington, DC: American Society for Microbiology Press. pp 67-78.
2. Brennan CA, Manthey AE, Gumport RI. 1983. Using T4 RNA ligase with DNA substrates. Methods Enzymol 100:38-52.
3. Bruce AG, Uhlenbeck OC. 1978. Reactions at the termini of tRNA with T4 RNA ligase. Nucleic Acids Res 5:3665-3677.
4. Cudny H, Deutscher MP. 1986. High-level overexpression, rapid purification, and properties of Escherichia coli tRNA nucleotidyltransferase. J Biol Chem 261:6450-6453.
5. fMet. Biochemistry 25:6572-6578.
6. Florentz C, Giegé R. 1995. tRNA-like structures in plant viral RNAs. In: Söll D, RajBhandary UL, eds. tRNA: Structure, biosynthesis, and function. Washington, DC: American Society for Microbiology Press. pp 141-163.
7. fMet formyltransferase. J Mol Biol 224:359-367.
8. Hamann CS, Hou YM. 1995. Enzymatic aminoacylation of tRNA acceptor stem helices with cysteine is dependent on a single nucleotide. Biochemistry 34:6527-6532.
9. His in aminoacylation. Nucleic Acids Res 17:7855-7863.
10. Hou YM. 1994. Structural elements that contribute to an unusual tertiary interaction in a transfer RNA. Biochemistry 33:4677-4681.
11. Hou YM. 1997. Discriminating among the discriminator bases of tRNAs. Chemistry & Biology 4:93-96.
12. Hou YM, Gamper H. 1996. Inhibition of tRNA aminoacylation by 2′-O-methyl oligonucleotides. Biochemistry 35:15340-15348.
13. Kim SH, Suddath FL, Quigley GJ, McPherson A, Sussman JL, Wang AH, Seeman NC, Rich A. 1974. Three-dimensional tertiary structure of yeast phenylalanine transfer RNA. Science 185:435-440.
14. Cys by Escherichia coli cysteinyl-tRNA synthetase. Biochemistry 32:7435-7444.
15. Kunkel TA, Roberts JD, Zakour RA. 1987. Rapid and efficient site-specific mutagenesis without phenotypic selection. Methods Enzymol 154:367-382.
16. Lee CP, Dyson MR, Mandal N, Varshney U, Bahramian MB, RajBhandary UL. 1992. Striking effects of coupling mutations in the acceptor stem on recognition of tRNAs by Escherichia coli Met-tRNA synthetase and Met-tRNA transformylase. Proc Natl Acad Sci USA 89:9262-9266.
17. Lee CP, Mandai N, Dyson MR, RajBhandary UL. 1993. The discriminator base influences tRNA structure at the end of the acceptor stem and possibly its interaction with proteins. Proc Natl Acad Sci USA 90:7149-7152.
18. Limmer S, Hofmann HP, Ott G, Sprinzl M. 1993. The 3′-terminal end (NCCA) of tRNA determines the structure and stability of the aminoacyl acceptor stem. Proc Natl Acad Sci USA 90:6199-6202.
19. Maizels N, Weiner AM. 1994. Phylogeny from function: Evidence from the molecular fossil record that tRNA originated in replication, not translation. Proc Natl Acad Sci USA 91:6729-6734.
20. McLaughlin LW, Piel N, Graeser E. 1985. Donor activation in the T4 RNA ligase reaction. Biochemistry 24:267-273.
21. Pscheidt RH, Wells BD. 1986. Different conformations of the 3′ termini of initiator and elongator transfer ribonucleic acids. J Biol Chem 261:7253-7256.
22. Puglisi EV, Puglisi JD, Williamson JR, RajBhandary UL. 1994. NMR analysis of tRNA acceptor stem microhelices: Discriminator base change affects tRNA conformation at the 3′ end. Proc Natl Acad Sci USA 91:11467-11471.
23. Asp by cognate aspartyl-tRNA synthetase. Science 252:1696-1699.
24. Reich C, Olsen GJ, Pace B, Pace NR. 1988. Role of the protein moiety of ribonuclease P, a ribonucleoprotein enzyme. Science 239:178-181.
25. Robertus JD, Ladner JE, Finch JT, Rhodes D, Brown RS, Clark BFC, Klug A. 1974. Structure of yeast phenylalanine tRNA at 3 Å resolution. Nature 250:546-551.
26. Asp. Science 252:1682-1689.
27. Schevitz RW, Podjarny AD, Krishnamachari N, Hughes JJ, Sigler PB, Sussman JL. 1979. Crystal structure of a eukaryotic initiator tRNA. Nature 278:188-190.
28. Varani G, Cheong C, Tinoco I Jr. 1991. Structure of an unusually stable RNA hairpin. Biochemistry 30:3280-3289.
29. Walter AE, Turner DH. 1994. Sequence dependence of stability for coaxial stacking of RNA helixes with Watson-Crick base paired interfaces. Biochemistry 33:12715-12719.
30. fMet. Nature 286:346-351.
31. Xu J, Lapham J, Crothers DM. 1996. Determining RNA solution structure by segmental isotopic labeling and NMR: Application to Caenorhabditis elegans spliced leader RNA 1. Proc Natl Acad Sci USA 93:44-48.
32. Yu YT, Shu MD, Steitz JA. 1997. A new method for detecting sites of 2′-O-methylation in RNA molecules. RNA 3:324-331.