An assembly landscape for the 30S ribosomal subunit (original) (raw)

• Wimberly, B. T. et al. Structure of the 30S ribosomal subunit. Nature 407, 327–339 (2000)
  Article ADS CAS Google Scholar
• Schluenzen, F. et al. Structure of functionally activated small ribosomal subunit at 3.3 Å resolution. Cell 102, 615–623 (2000)
  Article CAS Google Scholar
• Brodersen, D. E., Clemons, W. M. Jr, Carter, A. P., Wimberly, B. T. & Ramakrishnan, V. Crystal structure of the 30 S ribosomal subunit from Thermus thermophilus: structure of the proteins and their interactions with 16 S RNA. J. Mol. Biol. 316, 725–768 (2002)
  Article CAS Google Scholar
• Moazed, D., Stern, S. & Noller, H. F. Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension. J. Mol. Biol. 187, 399–416 (1986)
  Article CAS Google Scholar
• Agalarov, S. C. & Williamson, J. R. A hierarchy of RNA subdomains in assembly of the central domain of the 30 S ribosomal subunit. RNA 6, 402–408 (2000)
  Article CAS Google Scholar
• Powers, T., Daubresse, G. & Noller, H. F. Dynamics of in vitro assembly of 16 S rRNA into 30 S ribosomal subunits. J. Mol. Biol. 232, 362–374 (1993)
  Article CAS Google Scholar
• Recht, M. I. & Williamson, J. R. Thermodynamics and kinetics of central domain assembly. Cold Spring Harbor Symp. Quant. Biol. 66, 591–598 (2001)
  Article CAS Google Scholar
• Stagg, S. M., Mears, J. A. & Harvey, S. C. A structural model for the assembly of the 30S subunit of the ribosome. J. Mol. Biol. 328, 49–61 (2003)
  Article CAS Google Scholar
• Stern, S., Powers, T., Changchien, L. M. & Noller, H. F. RNA–protein interactions in 30S ribosomal subunits: folding and function of 16S rRNA. Science 244, 783–790 (1989)
  Article ADS CAS Google Scholar
• Held, W. A., Ballou, B., Mizushima, S. & Nomura, M. Assembly mapping of 30 S ribosomal proteins from Escherichia coli. J. Biol. Chem. 249, 3103–3111 (1974)
  CAS PubMed Google Scholar
• Culver, G. M. Assembly of the 30S ribosomal subunit. Biopolymers 68, 234–249 (2003)
  Article CAS Google Scholar
• Traub, P. & Nomura, M. Structure and function of Escherichia coli ribosomes VI. Mechanism of assembly of 30 S ribosomes studied in vitro. J. Mol. Biol. 40, 391–413 (1969)
  Article CAS Google Scholar
• Held, W. A. & Nomura, M. Rate-determining step in the reconstitution of Escherichia coli 30S ribosomal subunits. Biochemistry 12, 3273–3281 (1973)
  Article CAS Google Scholar
• Holmes, K. L. & Culver, G. M. Mapping structural differences between 30S ribosomal subunit assembly intermediates. Nature Struct. Mol. Biol. 11, 179–186 (2004)
  Article CAS Google Scholar
• Gygi, S. P. et al. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nature Biotechnol. 17, 994–999 (1999)
  Article CAS Google Scholar
• Oda, Y., Huang, K., Cross, F. R., Cowburn, D. & Chait, B. T. Accurate quantitation of protein expression and site-specific phosphorylation. Proc. Natl Acad. Sci. USA 96, 6591–6596 (1999)
  Article ADS CAS Google Scholar
• Pasa-Tolic, L. et al. High throughput proteome-wide precision measurements of protein expression using mass spectrometry. J. Am. Chem. Soc. 121, 7949–7950 (1999)
  Article CAS Google Scholar
• Sechi, S. & Oda, Y. Quantitative proteomics using mass spectrometry. Curr. Opin. Chem. Biol. 7, 70–77 (2003)
  Article CAS Google Scholar
• Traub, P. & Nomura, M. Structure and function of E. coli ribosomes. V. Reconstitution of functionally active 30S ribosomal particles from RNA and proteins. Proc. Natl Acad. Sci. USA 59, 777–784 (1968)
  Article ADS CAS Google Scholar
• Beavis, R. C. & Chait, B. T. Matrix-assisted laser desorption ionization mass-spectrometry of proteins. Methods Enzymol. 270, 519–551 (1996)
  Article CAS Google Scholar
• Hillenkamp, F. & Karas, M. Mass spectrometry of peptides and proteins by matrix-assisted ultraviolet laser desorption/ionization. Methods Enzymol. 193, 280–295 (1990)
  Article CAS Google Scholar
• Jennings, K. R. & Dolnikowski, G. G. Mass analyzers. Methods Enzymol. 193, 37–61 (1990)
  Article CAS Google Scholar
• Pichon, J., Marvaldi, J. & Marchis-Mouren, G. The in vivo order of protein addition in the course of Escherichia coli 30 S and 50 S subunit biogenesis. J. Mol. Biol. 96, 125–137 (1975)
  Article CAS Google Scholar
• Mangiarotti, G., Apirion, D., Schlessinger, D. & Silengo, L. Biosynthetic precursors of 30S and 50S ribosomal particles in Escherichia coli. Biochemistry 7, 456–472 (1968)
  Article CAS Google Scholar
• Srivastava, A. K. & Schlessinger, D. in The Ribosome: Structure, Function, & Evolution (ed. Hill, W. et al.) 426–434 (American Society of Microbiology, Washington DC, 1990)
  Google Scholar
• Xia, T. et al. Thermodynamic parameters for an expanded nearest-neighbour model for formation of RNA duplexes with Watson–Crick base pairs. Biochemistry 37, 14719–14735 (1998)
  Article CAS Google Scholar
• Dill, K. A. & Chan, H. S. From Levinthal to pathways to funnels. Nature Struct. Biol. 4, 10–19 (1997)
  Article CAS Google Scholar
• Pan, J., Thirumalai, D. & Woodson, S. A. Folding of RNA involves parallel pathways. J. Mol. Biol. 273, 7–13 (1997)
  Article CAS Google Scholar
• Rook, M. S., Treiber, D. K. & Williamson, J. R. Fast folding mutants of the Tetrahymena group I ribozyme reveal a rugged folding energy landscape. J. Mol. Biol. 281, 609–620 (1998)
  Article CAS Google Scholar
• Thirumalai, D. & Woodson, S. A. Kinetics of folding of proteins and RNA. Acc. Chem. Res. 29, 433–439 (1996)
  Article CAS Google Scholar
• Nomura, M. Assembly of bacterial ribosomes. Science 179, 864–873 (1973)
  Article ADS CAS Google Scholar
• Alix, J. H. & Guerin, M. F. Mutant DnaK chaperones cause ribosome assembly defects in Escherichia coli. Proc. Natl Acad. Sci. USA 90, 9725–9729 (1993)
  Article ADS CAS Google Scholar
• Maki, J. A., Schnobrich, D. J. & Culver, G. M. The DnaK chaperone system facilitates 30S ribosomal subunit assembly. Mol. Cell 10, 129–138 (2002)
  Article CAS Google Scholar
• Maki, J. A., Southworth, D. R. & Culver, G. M. Demonstration of the role of the DnaK chaperone system in assembly of 30S ribosomal subunits using a purified in vitro system. RNA 9, 1418–1421 (2003)
  Article CAS Google Scholar
• Serdyuk, I. N., Agalarov, S. C., Sedelnikova, S. E., Spirin, A. S. & May, R. P. Shape and compactness of the isolated ribosomal 16 S RNA and its complexes with ribosomal proteins. J. Mol. Biol. 169, 409–425 (1983)
  Article CAS Google Scholar
• Culver, G. M. & Noller, H. F. Efficient reconstitution of functional Escherichia coli 30S ribosomal subunits from a complete set of recombinant small subunit ribosomal proteins. RNA 5, 832–843 (1999)
  Article CAS Google Scholar