Access the full text.
Sign up today, get DeepDyve free for 14 days.
Loading next page...
/lp/wiley/crystallization-and-preliminary-x-ray-analysis-of-peptidyl-trna-NsVJeHFCCg
References (42)
-
Sophie Dutka, Thierry Meinnel, C. Lazennec, Y. Mechulam, Sylvain Blanquet (1993)
Role of the 1-72 base pair in tRNAs for the activity of Escherichia coli peptidyl-tRNA hydrolase.Nucleic acids research, 21 17
-
N. Singh, U. Varshney (2004)
A physiological connection between tmRNA and peptidyl-tRNA hydrolase functions in Escherichia coli.Nucleic acids research, 32 20
-
Yokoyama (2000)
943Nature Struct. Biol., 7
-
M. Gong, L. Cruz-Vera, C. Yanofsky (2007)
Ribosome Recycling Factor and Release Factor 3 Action Promotes TnaC-Peptidyl-tRNA Dropoff and Relieves Ribosome Stalling during Tryptophan Induction of tna Operon Expression in Escherichia coliJournal of Bacteriology, 189
-
A. Caplan, J. Menninger (1979)
Tests of the ribosomal editing hypothesis: amino acid starvation differentially enhances the dissociation of peptidyl-tRNA from the ribosome.Journal of molecular biology, 134 3
-
J. Menninger (1978)
The accumulation as peptidyl-transfer RNA of isoaccepting transfer RNA families in Escherichia coli with temperature-sensitive peptidyl-transfer RNA hydrolase.The Journal of biological chemistry, 253 19
-
B. Matthews (1968)
Solvent content of protein crystals.Journal of molecular biology, 33 2
-
(1997)
Methods Enzymol -
E. Schmitt, Y. Mechulam, M. Fromant, P. Plateau, S. Blanquet (1997)
Crystal structure at 1.2 Å resolution and active site mapping of Escherichia coli peptidyl‐tRNA hydrolaseThe EMBO Journal, 16
-
G. Ostheimer, Haralambos Hadjivassiliou, D. Kloer, A. Barkan, B. Matthews (2005)
Structural analysis of the group II intron splicing factor CRS2 yields insights into its protein and RNA interaction surfaces.Journal of molecular biology, 345 1
-
Teresa Clarke, V. Romanov, R. Lam, S. Gothe, Srinivas Peddi, E. Razumova, R. Lipman, A. Branstrom, N. Chirgadze (2011)
Structure of Francisella tularensis peptidyl-tRNA hydrolase.Acta crystallographica. Section F, Structural biology and crystallization communications, 67 Pt 4
-
D. Paulin, P. Yot, F. Chapeville (1967)
Enzymatic hydrolysis of N-substituted aminoacyl-tRNA.FEBS letters, 1 3
-
G. Das, U. Varshney (2006)
Peptidyl-tRNA hydrolase and its critical role in protein biosynthesis.Microbiology, 152 Pt 8
-
H. Kössel, U. RajBhandary (1968)
Studies on polynucleotides. LXXXVI. Enzymic hydrolysis of N-acylaminoacyl-transfer RNA.Journal of molecular biology, 35 3
-
J. Goodall, Guo Chen, M. Page (2004)
Essential role of histidine 20 in the catalytic mechanism of Escherichia coli peptidyl-tRNA hydrolase.Biochemistry, 43 15
-
M. Fromant, P. Plateau, E. Schmitt, Y. Mechulam, S. Blanquet (1999)
Receptor site for the 5'-phosphate of elongator tRNAs governs substrate selection by peptidyl-tRNA hydrolase.Biochemistry, 38 16
-
J. Menez, R. Buckingham, M. Zamaroczy, Celine Campelli (2002)
Peptidyl‐tRNA hydrolase in Bacillus subtilis, encoded by spoVC, is essential to vegetative growth, whereas the homologous enzyme in Saccharomyces cerevisiae is dispensableMolecular Microbiology, 45
-
G. Rosas-Sandoval, A. Ambrogelly, J. Rinehart, David Wei, L. Cruz-Vera, D. Graham, K. Stetter, G. Guarneros, D. Söll (2002)
Orthologs of a novel archaeal and of the bacterial peptidyl–tRNA hydrolase are nonessential in yeastProceedings of the National Academy of Sciences of the United States of America, 99
-
S. Pulavarti, Anupam Jain, P. Pathak, Anjum Mahmood, A. Arora (2008)
Solution structure and dynamics of peptidyl-tRNA hydrolase from Mycobacterium tuberculosis H37Rv.Journal of molecular biology, 378 1
-
S. Yokoyama, Y. Matsuo, H. Hirota, T. Kigawa, M. Shirouzu, Y. Kuroda, Hitoshi Kurumizaka, Shinichi Kawaguchi, Yutaka Ito, Takehiko Shibata, Masatsune Kainosho, Y. Nishimura, Yorinao Inoue, S. Kuramitsu (2000)
Structural genomics projects in Japan.Progress in biophysics and molecular biology, 73 5
-
Z. Otwinowski, W. Minor (1997)
[20] Processing of X-ray diffraction data collected in oscillation mode.Methods in enzymology, 276
-
V. Heurgué-Hamard, L. Mora, G. Guarneros, R. Buckingham (1996)
The growth defect in Escherichia coli deficient in peptidyl‐tRNA hydrolase is due to starvation for Lys‐tRNA(Lys).The EMBO Journal, 15
-
C. Sassetti, D. Boyd, E. Rubin (2003)
Genes required for mycobacterial growth defined by high density mutagenesisMolecular Microbiology, 48
-
M. Selvaraj, Siddhartha Roy, N. Singh, R. Sangeetha, U. Varshney, Mamannamana Vijayan (2007)
Structural plasticity and enzyme action: crystal structures of mycobacterium tuberculosis peptidyl-tRNA hydrolase.Journal of molecular biology, 372 1
-
Kosuke Ito, R. Murakami, M. Mochizuki, Hao Qi, Y. Shimizu, K. Miura, T. Ueda, T. Uchiumi (2012)
Structural basis for the substrate recognition and catalysis of peptidyl-tRNA hydrolaseNucleic Acids Research, 40
-
Atherly (1972)
245Nature New Biol., 240
-
Laurent Giorgi, P. Plateau, G. O'Mahony, Caroline Aubard, M. Fromant, A. Thureau, M. Grøtli, S. Blanquet, F. Bontems (2011)
NMR-based substrate analog docking to Escherichia coli peptidyl-tRNA hydrolase.Journal of molecular biology, 412 4
-
F. Long, A. Vagin, P. Young, G. Murshudov (2007)
BALBES: a molecular-replacement pipelineActa Crystallographica Section D: Biological Crystallography, 64
-
Kumar (2012)
58Int. J. Biochem. Mol. Biol., 3
-
M. Fromant, Maria-Laura Ferri-Fioni, P. Plateau, S. Blanquet (2003)
Peptidyl-tRNA hydrolase from Sulfolobus solfataricus.Nucleic acids research, 31 12
-
Kosuke Ito, Hao Qi, Y. Shimizu, R. Murakami, K. Miura, T. Ueda, T. Uchiumi (2011)
Crystallization and preliminary X-ray analysis of peptidyl-tRNA hydrolase from Escherichia coli in complex with the acceptor-TΨC domain of tRNA.Acta crystallographica. Section F, Structural biology and crystallization communications, 67 Pt 12
-
T. Oshima, K. Imahori (1974)
Description of Thermus thermophilus (Yoshida and Oshima) comb. nov., a Nonsporulating Thermophilic Bacterium from a Japanese Thermal SpaInternational Journal of Systematic and Evolutionary Microbiology, 24
-
Laurent Giorgi, F. Bontems, M. Fromant, Caroline Aubard, S. Blanquet, P. Plateau (2011)
RNA-binding Site of Escherichia coli Peptidyl-tRNA HydrolaseThe Journal of Biological Chemistry, 286
-
M. Fromant, P. Plateau, S. Blanquet (2000)
Function of the extra 5'-phosphate carried by histidine tRNA.Biochemistry, 39 14
-
V. Heurgué-Hamard, R. Karimi, L. Mora, J. Macdougall, Céline Leboeuf, Guido Grentzmann, M. Ehrenberg, R. Buckingham (1998)
Ribosome release factor RF4 and termination factor RF3 are involved in dissociation of peptidyl‐tRNA from the ribosomeThe EMBO Journal, 17
-
J. Pereda, W. Waas, Y. Jan, E. Ruoslahti, P. Schimmel, J. Pascual (2004)
Crystal Structure of a Human Peptidyl-tRNA Hydrolase Reveals a New Fold and Suggests Basis for a Bifunctional Activity*Journal of Biological Chemistry, 279
-
N. Singh, R. Ahmad, R. Sangeetha, U. Varshney (2008)
Recycling of ribosomal complexes stalled at the step of elongation in Escherichia coli.Journal of molecular biology, 380 3
-
M. Winn, C. Ballard, K. Cowtan, E. Dodson, P. Emsley, P. Evans, R. Keegan, E. Krissinel, A. Leslie, A. Mccoy, S. McNicholas, G. Murshudov, N. Pannu, E. Potterton, H. Powell, R. Read, A. Vagin, K. Wilson (2011)
Overview of the CCP4 suite and current developmentsActa Crystallographica Section D: Biological Crystallography, 67
-
L. Cruz-Vera, M. Magos-Castro, Efraín Zamora-Romo, G. Guarneros (2004)
Ribosome stalling and peptidyl-tRNA drop-off during translational delay at AGA codons.Nucleic acids research, 32 15
-
R. Karimi, M. Pavlov, V. Heurgué-Hamard, Richard Buckingham, Måns Ehrenberg (1998)
Initiation factors IF1 and IF2 synergistically remove peptidyl-tRNAs with short polypeptides from the P-site of translating Escherichia coli ribosomes.Journal of molecular biology, 281 2
-
L. Schulman, H. Pelka (1975)
The structural basis for the resistance of Escherichia coli formylmethionyl transfer ribonucleic acid to cleavage by Escherichia coli peptidyl transfer ribonucleic acid hydrolase.The Journal of biological chemistry, 250 2
-
J. Menez, V. Heurgué-Hamard, R. Buckingham (2000)
Sequestration of specific tRNA species cognate to the last sense codon of an overproduced gratuitous protein.Nucleic acids research, 28 23
- Publisher
- Wiley
- Copyright
- International Union of Crystallography, 2013
- ISSN
- 1744-3091
- eISSN
- 1744-3091
- DOI
- 10.1107/S1744309113003424
- pmid
- 23519816
- Publisher site
- See Article on Publisher Site
Abstract
Peptidyl‐tRNA is produced from the ribosome as a result of aborted translation. Peptidyl‐tRNA hydrolase cleaves the ester bond between the peptide and the tRNA of peptidyl‐tRNA molecules, to recycle tRNA for further rounds of protein synthesis. In this study, peptidyl‐tRNA hydrolase from Thermus thermophilus HB8 (TthPth) was crystallized using 2‐methyl‐2,4‐pentanediol as a precipitant. The crystals belonged to the orthorhombic space group P212121, with unit‐cell parameters a = 47.45, b = 53.92, c = 58.67 Å, and diffracted X‐rays to atomic resolution (beyond 1.0 Å resolution). The asymmetric unit is expected to contain one TthPth molecule, with a solvent content of 27.13% (VM = 1.69 Å3 Da−1). The structure is being solved by molecular replacement.
Journal
Acta Crystallographica Section F – Wiley
Published: Mar 1, 2013