Ribosome crystallography: From early evolution to contemporary medical insights
暂无分享,去创建一个
[1] M. Yusupov,et al. Crystallization of 70 S ribosomes and 30 S ribosomal subunits from Thermus thermophilus , 1987 .
[2] Gregor Blaha,et al. Structures of MLSBK Antibiotics Bound to Mutated Large Ribosomal Subunits Provide a Structural Explanation for Resistance , 2005, Cell.
[3] Directed evolution of nucleic acids by independent replication and selection. , 1990, Science.
[4] A. Bashan,et al. Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome reveals its chaperone action. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[5] P. Moore. The ribosome returns , 1988, Nature.
[6] Daniel N. Wilson,et al. Enhanced SnapShot: Antibiotic Inhibition of Protein Synthesis II , 2009, Cell.
[7] R. Garrett. Membrane molecular biology Edited by C. F. Fox and A. Keith. Pp xvii + 525. W. H. Freeman and Co. Ltd, Reading. 1972. E11a30 , 1973 .
[8] A. Yonath,et al. From peptide‐bond formation to cotranslational folding: dynamic, regulatory and evolutionary aspects , 2005, FEBS letters.
[9] Matthew Belousoff,et al. The evolving ribosome: from non-coded peptide bond formation to sophisticated translation machinery. , 2009, Research in microbiology.
[10] A. Bashan,et al. Correlating ribosome function with high-resolution structures. , 2008, Trends in microbiology.
[11] Reproducible growth of well diffracting ribosomal crystals. , 2005, Acta crystallographica. Section D, Biological crystallography.
[12] F. Schluenzen,et al. Ribosomal crystallography: from poorly diffracting microcrystals to high-resolution structures. , 2001, Methods.
[13] T. Steitz,et al. Peptidyl-CCA deacylation on the ribosome promoted by induced fit and the O3'-hydroxyl group of A76 of the unacylated A-site tRNA. , 2008, RNA.
[14] S. Hobbie,et al. Mitochondrial deafness alleles confer misreading of the genetic code , 2008, Proceedings of the National Academy of Sciences.
[15] S Blair Hedges,et al. The colonization of land by animals: molecular phylogeny and divergence times among arthropods. , 2004, BMC biology.
[16] R. Green,et al. Base-pairing between 23S rRNA and tRNA in the ribosomal A site. , 1999, Molecular cell.
[17] A. Bashan,et al. On Ribosome Conservation and Evolution , 2006 .
[18] Daniel N. Wilson. Antibiotics and the Inhibition of Ribosome Function , 2006 .
[19] F. Schluenzen,et al. Structure of Functionally Activated Small Ribosomal Subunit at 3.3 Å Resolution , 2000, Cell.
[20] R. Milligan,et al. Location of exit channel for nascent protein in 80S ribosome , 1986, Nature.
[21] V. Ramakrishnan,et al. Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome , 2009, Nature Structural &Molecular Biology.
[22] Michael Yarus,et al. Multiple translational products from a five-nucleotide ribozyme , 2010, Proceedings of the National Academy of Sciences.
[23] E. Böttger. The ribosome as a drug target. , 2006, Trends in biotechnology.
[24] F. Hartl,et al. Real-time observation of trigger factor function on translating ribosomes , 2006, Nature.
[25] J. Holton,et al. Structural basis for aminoglycoside inhibition of bacterial ribosome recycling , 2007, Nature Structural &Molecular Biology.
[26] F. Crick. Origin of the Genetic Code , 1967, Nature.
[27] Harry F. Noller,et al. Crystal Structure of a 70S Ribosome-tRNA Complex Reveals Functional Interactions and Rearrangements , 2014, Cell.
[28] J. Szostak,et al. In vitro selection of RNA molecules that bind specific ligands , 1990, Nature.
[29] A. Mankin,et al. Ribosomal peptidyl transferase can withstand mutations at the putative catalytic nucleotide , 2001, Nature.
[30] E. Böttger,et al. Visions & Reflections ( Minireview ) Antimicrobial agents targeting the ribosome : the issue of selectivity and toxicity lessons to be learned , 2007 .
[31] Daniel N. Wilson,et al. Interplay between the ribosomal tunnel, nascent chain, and macrolides influences drug inhibition. , 2010, Chemistry & biology.
[32] Rachel Green,et al. The Active Site of the Ribosome Is Composed of Two Layers of Conserved Nucleotides with Distinct Roles in Peptide Bond Formation and Peptide Release , 2004, Cell.
[33] S. Steinberg,et al. A hierarchical model for evolution of 23S ribosomal RNA , 2009, Nature.
[34] E. Youngman,et al. The interaction between C75 of tRNA and the A loop of the ribosome stimulates peptidyl transferase activity. , 2006, RNA.
[35] A. Bashan,et al. Ribosomal crystallography: initiation, peptide bond formation, and amino acid polymerization are hampered by antibiotics. , 2004, Annual review of microbiology.
[36] M. Eisenstein,et al. Ribosomal crystallography: from crystal growth to initial phasing , 1996 .
[37] J Frank,et al. The polypeptide tunnel system in the ribosome and its gating in erythromycin resistance mutants of L4 and L22. , 2001, Molecular cell.
[38] T. Steitz,et al. The structural basis of ribosome activity in peptide bond synthesis. , 2000, Science.
[39] N. Ban,et al. Generation of ribosome nascent chain complexes for structural and functional studies. , 2007, Journal of structural biology.
[40] J. S. Weinger,et al. Substrate-assisted catalysis of peptide bond formation by the ribosome , 2004, Nature Structural &Molecular Biology.
[41] A. Yonath,et al. Parameters for crystal growth of ribosomal subunits , 1982, Journal of cellular biochemistry.
[42] Charlotte M. Deane,et al. Cotranslational protein folding - fact or fiction? , 2007, ISMB/ECCB.
[43] J. Poehlsgaard,et al. The bacterial ribosome as a target for antibiotics , 2005, Nature Reviews Microbiology.
[44] Joachim Frank,et al. Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements. , 2006, Molecular cell.
[45] A. Mankin,et al. Antibiotics and the ribosome , 2006, Molecular microbiology.
[46] M. Rodnina,et al. Rapid peptide bond formation on isolated 50S ribosomal subunits , 2006, EMBO reports.
[47] J. Watson,et al. Involvement of RNA in the Synthesis of Proteins , 1963, Science.
[48] Bruno P. Klaholz,et al. Structure of the 30S translation initiation complex , 2008, Nature.
[49] Daniel N. Wilson,et al. The binding mode of the trigger factor on the ribosome: Implications for protein folding and SRP interaction , 2005, Structure.
[50] A. Spirin,et al. Does the channel for nascent peptide exist inside the ribosome? Immune electron microscopy study , 1988, FEBS letters.
[51] Wolfgang Wintermeyer,et al. How ribosomes make peptide bonds. , 2007, Trends in biochemical sciences.
[52] Wittmann Hg,et al. Structure and function of the ribosome. , 1973 .
[53] A. Mankin,et al. The Ribosomal Peptidyl Transferase Center: Structure, Function, Evolution, Inhibition , 2005, Critical reviews in biochemistry and molecular biology.
[54] R. Berisio,et al. Functional aspects of ribosomal architecture: symmetry, chirality and regulation , 2004 .
[55] A. Yonath,et al. Cryocrystallography of ribosomal particles. , 1989, Acta crystallographica. Section B, Structural science.
[56] H. Noller,et al. Unusual resistance of peptidyl transferase to protein extraction procedures. , 1992, Science.
[57] M Gerstein,et al. The geometry of the ribosomal polypeptide exit tunnel. , 2006, Journal of molecular biology.
[58] D Thirumalai,et al. Ribosome exit tunnel can entropically stabilize alpha-helices. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[59] Bernard Rees,et al. Structural basis for messenger RNA movement on the ribosome , 2006, Nature.
[60] Z. Vogel,et al. Ribosome activation and the binding of dihydrostreptomycin: effect of polynucleotides and temperature on activation. , 1970, Journal of molecular biology.
[61] R. Berisio,et al. 23S rRNA 2058A→G Alteration Mediates Ketolide Resistance in Combination with Deletion in L22 , 2006, Antimicrobial Agents and Chemotherapy.
[62] Frank Schluenzen,et al. Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression. , 2003, Molecular cell.
[63] T. Cech,et al. One binding site determines sequence specificity of Tetrahymena pre-rRNA self-splicing, trans-splicing, and RNA enzyme activity , 1986, Cell.
[64] H. Bartels,et al. Characterization and preliminary attempts for derivatization of crystals of large ribosomal subunits from Haloarcula marismortui diffracting to 3 A resolution. , 1991, Journal of molecular biology.
[65] R. Berisio,et al. A crevice adjoining the ribosome tunnel: Hints for cotranslational folding , 2005, FEBS letters.
[66] A. Bashan,et al. Crystal structure of the synergistic antibiotic pair, lankamycin and lankacidin, in complex with the large ribosomal subunit , 2011, Proceedings of the National Academy of Sciences.
[67] J. Åqvist,et al. Analysis of predictions for the catalytic mechanism of ribosomal peptidyl transfer. , 2006, Biochemistry.
[68] Sotaro Uemura,et al. Peptide bond formation destabilizes Shine–Dalgarno interaction on the ribosome , 2007, Nature.
[69] S. Strobel,et al. Toward Ribosomal RNA Catalytic Activity in the Absence of Protein , 2007, Journal of Molecular Evolution.
[70] F. Schluenzen,et al. X‐ray crystallography study on ribosome recycling: the mechanism of binding and action of RRF on the 50S ribosomal subunit , 2005, The EMBO journal.
[71] Samanta Pino,et al. Generation of Long RNA Chains in Water* , 2009, The Journal of Biological Chemistry.
[72] F. Schluenzen,et al. Structure of Functionally Activated Small Ribosomal Subunit , 2000 .
[73] A. Bashan,et al. The linkage between ribosomal crystallography, metal ions, heteropolytungstates and functional flexibility. , 2008, Journal of molecular structure.
[74] J. Frank,et al. A model of protein synthesis based on cryo-electron microscopy of the E. coli ribosome , 1995, Nature.
[75] A new crystalline form of 30 S ribosomal subunits from Thermus thermophilus , 1988 .
[76] Intraribosomal Regulation of Expression and Fate of Proteins , 2004, Chembiochem : a European journal of chemical biology.
[77] A. Yonath,et al. Antibiotics targeting ribosomes: resistance, selectivity, synergism and cellular regulation. , 2005, Annual review of biochemistry.
[78] Frank Schluenzen,et al. Structural insight into the role of the ribosomal tunnel in cellular regulation , 2003, Nature Structural Biology.
[79] R. Berisio,et al. Ribosome's mode of function: myths, facts and recent results , 2009, Journal of peptide science : an official publication of the European Peptide Society.
[80] Malte Beringer,et al. The ribosomal peptidyl transferase. , 2007, Molecular cell.
[81] A. Yonath,et al. Some x-ray diffraction patterns from single crystals of the large ribosomal subunit from Bacillus stearothermophilus. , 1984, Journal of molecular biology.
[82] Jill K Thompson,et al. Testing the conservation of the translational machinery over evolution in diverse environments: assaying Thermus thermophilus ribosomes and initiation factors in a coupled transcription-translation system from Escherichia coli. , 2004, Nucleic acids research.
[83] B. Cooperman,et al. Rapid ribosomal translocation depends on the conserved 18-55 base pair in P-site transfer RNA , 2006, Nature Structural &Molecular Biology.
[84] V. Ramakrishnan,et al. Crystal structure of an initiation factor bound to the 30S ribosomal subunit. , 2001, Science.
[85] W. Hendrickson,et al. Promiscuous Substrate Recognition in Folding and Assembly Activities of the Trigger Factor Chaperone , 2009, Cell.
[86] Yong-Gui Gao,et al. The Crystal Structure of the Ribosome Bound to EF-Tu and Aminoacyl-tRNA , 2009, Science.
[87] A Yonath,et al. Structure of functionally activated small ribosomal subunit at 3.3 angstroms resolution. , 2000, Cell.
[88] Chen Davidovich,et al. Structural basis for cross-resistance to ribosomal PTC antibiotics , 2008, Proceedings of the National Academy of Sciences.
[89] Samanta Pino,et al. Nonenzymatic RNA Ligation in Water* , 2008, Journal of Biological Chemistry.
[90] A. Yonath,et al. Crystallographic and image reconstruction studies on ribosomal particles from bacterial sources. , 1988, Methods in enzymology.
[91] T. Steitz,et al. The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. , 2000, Science.
[92] C. Yanofsky,et al. Instruction of Translating Ribosome by Nascent Peptide , 2002, Science.
[93] Frank Schluenzen,et al. High Resolution Structure of the Large Ribosomal Subunit from a Mesophilic Eubacterium , 2001, Cell.
[94] A Yonath,et al. Characterization of crystals of small ribosomal subunits. , 1988, Journal of molecular biology.
[95] Malte Beringer,et al. Essential Mechanisms in the Catalysis of Peptide Bond Formation on the Ribosome* , 2005, Journal of Biological Chemistry.
[96] Thomas A Steitz,et al. Structural insights into the roles of water and the 2' hydroxyl of the P site tRNA in the peptidyl transferase reaction. , 2005, Molecular cell.
[97] Peter J McCormick,et al. Nascent Membrane and Secretory Proteins Differ in FRET-Detected Folding Far inside the Ribosome and in Their Exposure to Ribosomal Proteins , 2004, Cell.
[98] T. Cech,et al. Peptide bond formation by in vitro selected ribozymes , 1997, Nature.
[99] A. Yonath,et al. Characterization and crystallization of ribosomal particles from Halobacterium marismortui , 1985 .
[100] T. Steitz,et al. Formation of the First Peptide Bond: The Structure of EF-P Bound to the 70S Ribosome , 2009, Science.
[101] A. Rich,et al. Partial resistance of nascent polypeptide chains to proteolytic digestion due to ribosomal shielding. , 1967, Journal of molecular biology.
[102] R. Miskin,et al. Inactivation and reactivation of ribosomal subunits: amino acyl-transfer RNA binding activity of the 30 s subunit of Escherichia coli. , 1971, Journal of molecular biology.
[103] G. Palade,et al. A SMALL PARTICULATE COMPONENT OF THE CYTOPLASM , 1955, The Journal of biophysical and biochemical cytology.
[104] G. Reinhart,et al. The signal sequence moves through a ribosomal tunnel into a noncytoplasmic aqueous environment at the ER membrane early in translocation , 1993, Cell.
[105] G. F. Joyce,et al. Self-Sustained Replication of an RNA Enzyme , 2009, Science.
[106] V. Ramakrishnan,et al. What we have learned from ribosome structures. , 2008, Biochemical Society transactions.
[107] Koreaki Ito,et al. The Ribosomal Exit Tunnel Functions as a Discriminating Gate , 2002, Cell.
[108] A. Bashan,et al. Induced-fit tightens pleuromutilins binding to ribosomes and remote interactions enable their selectivity , 2007, Proceedings of the National Academy of Sciences.
[109] T. Earnest,et al. Crystal Structure of the Ribosome at 5.5 Å Resolution , 2001, Science.
[110] M. Illangasekare,et al. Aminoacyl-RNA synthesis catalyzed by an RNA , 1995, Science.
[111] J. Holton,et al. Structures of the Bacterial Ribosome at 3.5 Å Resolution , 2005, Science.
[112] A Yonath,et al. A tunnel in the large ribosomal subunit revealed by three-dimensional image reconstruction. , 1987, Science.
[113] Gregor Blaha,et al. The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome , 2010, Nature Structural &Molecular Biology.
[114] H. Noller,et al. Structural basis for translation termination on the 70S ribosome , 2008, Nature.
[115] H. Bernstein,et al. Translation arrest requires two-way communication between a nascent polypeptide and the ribosome. , 2006, Molecular cell.
[116] M. Selmer,et al. Structure of the 70S Ribosome Complexed with mRNA and tRNA , 2006, Science.
[117] C. Dobson,et al. Three-dimensional structures of translating ribosomes by Cryo-EM. , 2004, Molecular cell.
[118] R. Zarivach,et al. 23S rRNA base pair 2057-2611 determines ketolide susceptibility and fitness cost of the macrolide resistance mutation 2058A-->G. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[119] Y. Caspi,et al. Ancient machinery embedded in the contemporary ribosome. , 2010, Biochemical Society transactions.
[120] Koreaki Ito,et al. Recruitment of a species-specific translational arrest module to monitor different cellular processes , 2011, Proceedings of the National Academy of Sciences.
[121] P. Walter,et al. Signal sequence recognition and protein targeting to the endoplasmic reticulum membrane. , 1994, Annual review of cell biology.
[122] N. Volkmann,et al. Crystals of complexes mimicking protein biosynthesis are suitable for crystallographic studies. , 1990, Biochimica et biophysica acta.
[123] S. Marzi,et al. A structural view of translation initiation in bacteria , 2009, Cellular and Molecular Life Sciences.
[124] Vijay S Pande,et al. Side-chain recognition and gating in the ribosome exit tunnel , 2008, Proceedings of the National Academy of Sciences.
[125] A Yonath,et al. Crystal structures of complexes of the small ribosomal subunit with tetracycline, edeine and IF3 , 2001, The EMBO journal.
[126] R. Zarivach,et al. Symmetry at the active site of the ribosome: structural and functional implications , 2005, Biological chemistry.
[127] P. Unwin,et al. Packing of ribosomes in crystals from the lizard Lacerta sicula. , 1977, Journal of molecular biology.
[128] A. Bashan,et al. Ribosomal antibiotics: structural basis for resistance, synergism and selectivity. , 2004, Trends in biotechnology.
[129] Guy Ziv,et al. Ribosome exit tunnel can entropically stabilize α-helices , 2005 .
[130] D. Klepacki,et al. The structure of ribosome-lankacidin complex reveals ribosomal sites for synergistic antibiotics , 2010, Proceedings of the National Academy of Sciences.
[131] M. Yusupov,et al. Interactions of the ribosome with mRNA and tRNA. , 2010, Current opinion in structural biology.
[132] H. Bartels,et al. Alterations at the peptidyl transferase centre of the ribosome induced by the synergistic action of the streptogramins dalfopristin and quinupristin , 2004, BMC Biology.
[133] M. Yusupov,et al. Messenger RNA conformations in the ribosomal E site revealed by X‐ray crystallography , 2007, EMBO reports.
[134] L. Lindahl,et al. Mutation from guanine to adenine in 25S rRNA at the position equivalent to E. coli A2058 does not confer erythromycin sensitivity in Sacchromyces cerevisae. , 2008, RNA.
[135] A. Mankin. Antibiotic blocks mRNA path on the ribosome , 2006, Nature Structural &Molecular Biology.
[136] M van Heel,et al. The 70S Escherichia coli ribosome at 23 A resolution: fitting the ribosomal RNA. , 1995, Structure.
[137] M. Rodnina,et al. Modulation of the Rate of Peptidyl Transfer on the Ribosome by the Nature of Substrates* , 2008, Journal of Biological Chemistry.
[138] L. Gold,et al. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. , 1990, Science.
[139] C. Yanofsky,et al. Changes produced by bound tryptophan in the ribosome peptidyl transferase center in response to TnaC, a nascent leader peptide. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[140] Sabine Petry,et al. Insights into Translational Termination from the Structure of RF2 Bound to the Ribosome , 2008, Science.
[141] Scott M Stagg,et al. Modeling a minimal ribosome based on comparative sequence analysis. , 2002, Journal of molecular biology.
[142] M. Yusupov,et al. Structural aspects of messenger RNA reading frame maintenance by the ribosome , 2010, Nature Structural &Molecular Biology.
[143] R. Jensen,et al. Barreling through the membrane , 2004, Nature Structural &Molecular Biology.
[144] H. Noller,et al. A base pair between tRNA and 23S rRNA in the peptidyl transferase centre of the ribosome , 1995, Nature.
[145] Tsutomu Suzuki,et al. Comprehensive genetic selection revealed essential bases in the peptidyl-transferase center , 2006, Proceedings of the National Academy of Sciences.
[146] A. Yonath. Ribosomal Tolerance and Peptide Bond Formation , 2003, Biological chemistry.
[147] Wolfgang Wintermeyer,et al. Signal sequence–independent membrane targeting of ribosomes containing short nascent peptides within the exit tunnel , 2008, Nature Structural &Molecular Biology.
[148] A. Bashan,et al. Structural basis for the antibacterial activity of the 12-membered-ring mono-sugar macrolide methymycin , 2010 .
[149] R. Garrett,et al. Structure and function of the ribosome. , 1973, Endeavour.
[150] J. Karle,et al. The transition state for formation of the peptide bond in the ribosome , 2006, Proceedings of the National Academy of Sciences.
[151] The Nucleation of Cholesterol Monohydrate Crystals in Model Bile Solutions , 1979 .
[152] Colin Echeverría Aitken,et al. Real-time tRNA transit on single translating ribosomes at codon resolution , 2010, Nature.
[153] T. Steitz,et al. A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits , 2002, Nature Structural Biology.
[154] Thomas A Steitz,et al. Structural insights into peptide bond formation , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[155] A. Warshel,et al. What are the roles of substrate-assisted catalysis and proximity effects in peptide bond formation by the ribosome? , 2005, Biochemistry.