In vitro/in vivo production of trna for x-ray studies

Methods in Molecular Biology

Volumn 1320, Issue , 2016, Pages 37-57

  Dégut, Clément ^a   Monod, Alexandre ^a   Brachet, Franck ^a   Crépin, Thibaut ^a   Tisné, Carine ^a  

^a NONE

Author keywords

Crystallization; In vitro transcription; In vivo production; TRNA purifi cation

Indexed keywords

NUCLEOTIDE; RNA POLYMERASE; TRANSFER RNA;

ARTICLE; BACILLUS SUBTILIS; CHROMATOGRAPHY; CRYSTALLIZATION; DNA TEMPLATE; ENZYME MODIFICATION; ESCHERICHIA COLI; IN VITRO STUDY; IN VIVO STUDY; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; RNA EXTRACTION; RNA FOLDING; RNA PURIFICATION; X RAY;

CRYSTALLIZATION; MACHINERY; RNA;

BIOLOGICAL PROCESS; CELLULAR MACHINERY; IN-VITRO; IN-VIVO; KEY ELEMENTS; STRUCTURAL ORGANIZATION; X-RAY STUDIES;

X RAYS;

EID: 84938347176     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-4939-2763-0_4     Document Type: Article

References (23)

1. Grosjean H, De Henau S, Doi T, Yamane A, Ohtsuka E, Ikehara M, Beauchemin N, Nicoghosian K, Cedergren R (1987) The in vivo stability, maturation and aminoacylation of anticodon-substituted Escherichia coli initiator methionine tRNAs. Eur J Biochem 166: 325-332
2. Motorin Y, Helm M (2010) tRNA stabilization by modifi ed nucleotides. Biochemistry 49:4934-4944
3. Phizicky EM, Hopper AK (2010) tRNA biology charges to the front. Genes Dev 24: 1832-1860
4. Robertus JD, Ladner JE, Finch JT, Rhodes D, Brown RS, Clark BF, Klug A (1974) Structure of yeast phenylalanine tRNA at 3 Å resolution. Nature 250:546-551
5. Suddath FL, Quingley GJ, McPherson A, Sneden D, Kim JJ, Kim SH, Rich A (1974) Three-dimensional structure of yeast phenylalanine transfer RNA at 3.0 angstroms resolution. Nature 248:20-24
6. Rould MA, Perona JJ, Soll D, Steitz TA (1989) Structure of E. coli glutaminyl-tRNA synthetase complexed with tRNA(Gln) and ATP at 2.8 A resolution. Science 246:1135-1142
7. Selmer M, Dunham CM, Murphy FV 4th, Weixlbaumer A, Perty S, Kelley AC, Weir JR, Ramakrishnan V (2006) Structure of the 70S ribosome complexed with mRNA and tRNA. Science 313:1935-1942
8. Schmeing TM, Voorhees RM, Kelley AC, Gao YG, Murphy FV 4th, Weir JR, Ramakrishnan V (2009) The crystal structure of the ribosome bound to EF-Tu and aminoacyl-tRNA. Science 326:688-694
9. Jenner L, Demeshkina N, Yusupova G, Yusupov M (2010) Structural rearrangements of the ribosome at the tRNA proofreading step. Nat Struct Mol Biol 17:1072-1078
10. Demeshkina N, Jenner L, Yusupova G, Yusupov M (2010) Interactions of the ribosome with mRNA and tRNA. Curr Opin Struct Biol 20:325-332
11. Wegrzyn G, Wegrzyn A (2008) Is tRNA only a translation factor or also a regulator of other processes? J Appl Genet 49:115-122
12. Li Y, Zhou H (2009) tRNAs as regulators in gene expression. Sci China C Life Sci 52: 245-252
13. Green NJ, Grundy FJ, Henkin TM (2010) The T box mechanism: tRNA as a regulatory molecule. FEBS Lett 584:318-324
14. Zhang J, Ferre-D'Amare AR (2013) Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA. Nature 500:363-366
15. Giege R (2008) Toward a more complete view of tRNA biology. Nat Struct Mol Biol 15: 1007-1014
16. Tisne C, Rigourd M, Marquet R, Ehresmann C, Dardel F (2000) NMR and biochemical characterization of recombinant human tRNA(Lys)3 expressed in Escherichia coli: identifi cation of posttranscriptional nucleotide modifi cations required for effi cient initiation of HIV-1 reverse transcription. RNA 6: 1403-1412
17. Barraud P, Schmitt E, Mechulam Y, Dardel F, Tisne C (2008) A unique conformation of the anticodon stem-loop is associated with the capacity of tRNAfMet to initiate protein synthesis. Nucleic Acids Res 36:4894-4901
18. Palencia A, Crépin T, Vu MT, Lincecum TL Jr, Martinis SA, Cusack S (2012) Structural dynamics of the aminoacylation and proofreading functional cycle of bacterial leucyltRNA synthetase. Nat Struct Mol Biol 19: 677-684
19. Ponchon L, Catala M, Seijo B, El Khouri M, Dardel F, Nonin-Lecomte S, Tisné C (2013) Co-expression of RNA-protein complexes in Escherichia coli and applications to RNA biology. Nucleic Acids Res 41:e150
20. Piotto M, Saudek V, Sklenar V (1992) Gradienttailored excitation for single- quantum NMR spectroscopy of aqueous solutions. J Biomol NMR 2:661-665
21. Meinnel T, Mechulam Y, Fayat G (1988) Fast purifi cation of a functional elongator tRNAMet expressed from a synthetic gene in vivo. Nucleic Acids Res 16:8095-8096
22. Studier FW, Moffatt BA (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol 189:113-130
23. Sampson JR, Uhlenbeck OC (1988) Biochemical and physical characterization of an unmodifi ed yeast phenylalanine transfer RNA transcribed in vitro. Proc Natl Acad Sci U S A 85:1033-1037