2001: The Ribosome, Vol. LXVI
Organizer: Bruce Stillman
Symposium Participants v
Foreword xvii Ribosome StructureRNA Structure and the Roots of Protein Synthesis A. Ric 1Atomic Structures of the 30S Subunit and Its Complexes with Ligands and Antibiotics D.E. Brodersen, A.P. Carter, W.M. Clemons, Jr., R.J. Morgan-Warren, F.V. Murphy IV, J.M. Ogle, M.J. Tarry, B.T. Wimberly, and V. Ramakrishnan 17Progress toward an Understanding of the Structure and Enzymatic Mechanism of the Large Ribosomal Subunit J.L. Hansen, T.M. Schmeing, D.J. Klein, J.A. Ippolito, N. Ban, P. Nissen, B. Freeborn, P.B. Moore, and T.A. Steitz 33High-resolution Structures of Ribosomal Subunits: Initiation, Inhibition, and Conformational Variability A. Bashan, I. Agmon, R. Zarivach, F. Schluenzen, J. Harms, M. Pioletti, H. Bartels, M. Gluehmann, H. Hansen, T. Auerbach, F. Franceschi, and A. Yonath 43Structure of the Ribosome at 5.5 Å Resolution and Its Interactions with Functional Ligands H.F. Noller, M.M. Yusupov, G.Z. Yusupova, A. Baucom, K. Lieberman, L. Lancaster, A. Dallas, K. Fredrick, T.N. Earnest, and J.H.D. Cate 57Ratchet-like Movements between the Two Ribosomal Subunits: Their Implications in Elongation Factor Recognition and tRNA Translocation J.Frank and R.K. Agrawal 67Do Single (Ribosome) Molecules Phase Themselves? M. van Heel 77Ribosome BiochemistryCorrelating the X-ray Structures for Halo- and Thermophilic Ribosomal Subunits with Biochemical Data for the Escherichia coli Ribosome P. Sergiev, A. Leonov, S. Dokudovskaya, O. Shpanchenko, O. Dontsova, A. Bogdanov, J. Rinke-Appel, F. Mueller, M. Osswald, K. von Knoblauch, and R. Brimacombe 87Probing Ribosome Structure and Function by Mutagenesis S.T. Gregory, M.A. Bayfield, M. O'Connor, J. Thompson, and A.E. Dahlberg 101Exploring the Mechanism of the Peptidyl Transfer Reaction by Chemical Footprinting S.A. Strobel, G.W. Muth, and L. Chen 109Analysis of the Active Site of the Ribosome by Site-directed Mutagenesis D.F. Kim, K. Semrad, and R. Green 119Codon Recognition and Decoding: The Transorientation Hypothesis A.B. Simonson and J.A. Lake 127Features and Functions of the Ribosomal E Site G. Blaha and K.H. Nierhaus 135Pseudouridines and Pseudouridine Synthases of the Ribosome J. Ofengand, A. Malhotra, J. Remme, N.S. Gutgsell, M. Del Campo, S. Jean-Charles, L. Peil, and Y. Kaya 147The Genetic CodeFormation of Two Classes of tRNA Synthetases in Relation to Editing Functions and Genetic Code P. Schimmel and L. Ribas de Pouplana 161Structural Basis for Amino Acid and tRNA Recognition by Class I Aminoacyl-tRNA Synthetases O. Nureki, S. Fukai, S. Sekine, A. Shimada, T. Terada, T. Nakama, M. Shirouzu, D.G. Vassylyev, and S. Yokoyama 167Aminoacyl-tRNA Synthesis: A Postgenomic Perspective C. Stathopoulos, I. Ahel, K. Ali, A. Ambrogelly, H. Becker, S. Bunjun, L. Feng, S. Herring, C. Jacquin-Becker, H. Kobayashi, D. Korencvicv , B. Krett, N. Mejlhede, B. Min, H. Nakano, S. Namgoong, C. Polycarpo, G. Raczniak, J. Rinehart, G. Rosas-Sandoval, B. Ruan, J. Sabina, A. Sauerwald, H. Toogood, D. Tumbula-Hansen, M. Ibba, and D. Söll 175tRNA Conformity A.D. Wolfson, F.J. LaRiviere, J.A. Pleiss, T. Dale, H. Asahara, and O.C. Uhlenbeck 85Initiator tRNA and Its Role in Initiation of Protein Synthesis C. Mayer, A. Stortchevoi,C. Köhrer, U. Varshney, and U.L. RajBhandary 195On Translation by RNAs Alone M. Yarus 207Frameshifting, Recoding, Shunting, IRESOverriding Standard Decoding: Implications of Recoding for Ribosome Function and Enrichment of Gene Expression J.F. Atkins, P.V. Baranov, O. Fayet, A.J. Herr,M.T. Howard, I.P. Ivanov, S. Matsufuji, W.A. Miller, B. Moore, M.F. Prère, N.M. Wills, J. Zhou, and R.F. Gesteland 217Structure and Function of the Stimulatory RNAs Involved in Programmed Eukaryotic -1 Ribosomal Frameshifting I. Brierley and S. Pennell 233Programmed +1 Translational Frameshifting in the Yeast Saccharomyces cerevisiae Results from Disruption of Translational Error Correction G. Stahl, S. Ben Salem, Z. Li, G. McCarty, A. Raman, M. Shah, and P.J. Farabaugh 249Preferential Translation of Adenovirus mRNAs in Infected Cells R. Cuesta, Q. Xi, and R.J. Schneider 259Shunting and Controlled Reinitiation: The Encounter of Cauliflower Mosaic Virus with the Translational Machinery T. Hohn, H.-S. Park, O. Guerra-Peraza, L. Stavolone, M.M. Pooggin, K. Kobayashi, and L.A. Ryabova 269Mechanisms of Internal Ribosome Entry in Translation Initiation J.S. Kieft, A. Grech, P. Adams, and J.A. Doudna 277Initiator Met-tRNA-independent Translation Mediated by an Internal Ribosome Entry Site Element in Cricket Paralysis Virus-like Insect Viruses E. Jan, S.R. Thompson, J.E.Wilson, T.V. Pestova, C.U.T. Hellen, and P. Sarnow 285Messenger RNA and Translational ControlThe mRNA Closed-loop Model: The Function of PABP and PABP-interacting Proteins in mRNA Translation A. Kahvejian, G. Roy, and N. Sonenberg 293The mRNA Capping Apparatus as Drug Target and Guide to Eukaryotic Phylogeny S. Shuman 301Nonsense-mediated mRNA Decay: Insights into Mechanism from the Cellular Abundance of Human Upf1, Upf2, Upf3, and Upf3X Proteins L.E. Maquat and G. Serin 313Nonsense-mediated mRNA Decay in Saccharomyces cerevisiae: A Quality Control Mechanism That Degrades Transcripts Harboring Premature Termination Codons C.I. González, W. Wang, and S.W. Peltz 321Translational Control of 15-Lipoxygenase and msl-2 mRNAs: Single Regulators or Corepressor Assemblies? F. Gebauer, D.H. OOstareck, A. Ostareck-Lederer M. Grskovic, and M.W. Hentze 329
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PUF Proteins and 3´UTR Regulation in the Caenorhabditis elegans Germ Line M. Wickens, D. Bernstein, S. Crittenden, C. Luitjens, and J. Kimble 337 Translational Control of Embryonic Cell Division by CPEB and Maskin I. Groisman, Y.-S. Huang, R. Mendez, Q. Cao, and J.D. Richter 345 Small RNA Regulators of Translation: Mechanisms of Action and Approaches for Identifying New Small RNAs S. Gottesman, G. Storz, C. Rosenow, N. Majdalani, F. Repoila, and K.M. Wassarman 353 Initiation Initiation Factors in the Early Events of mRNA Translation in Bacteria C.O. Gualerzi, L. Brandi, E. Caserta, C. Garofalo, M. Lammi, A. La Teana, D. Petrelli, R. Spurio, J. Tomsic, and C.L. Pon 363 The Translation of Capped mRNAs Has an Absolute Requirement for the Central Domain of eIF4G but Not for the Cap-binding Initiation Factor eIF4E I.K. Ali and R.J. Jackson 377 Functions of Eukaryotic Factors in Initiation of Translation T.V. Pestova and C.U.T. Hellen 389 Interactions of the Eukaryotic Translation Initiation Factor eIF4E J.D. Gross, H. Matsuo, M. Fletcher, A.B. Sachs, and G. Wagner 397 A Multifactor Complex of eIF1, eIF2, eIF3, eIF5, and tRNAiMet Promotes Initiation Complex Assembly and Couples GTP Hydrolysis to AUG Recognition K. Asano, L. Phan, L. Valásek, L.W. Schoenfeld, A. Shalev, J. Clayton, K. Nielsen, T.F. Donahue, and A.G. Hinnebusch 403 Universal Translation Initiation Factor IF2/eIF5B T.E. Dever, A. Roll-Mecak, S.K. Choi, J.H. Lee, C. Cao, B.-S. Shin, and S.K. Burley 417 Elongation and Termination Structural Studies of Eukaryotic Elongation Factors G.R. Andersen and J. Nyborg 425 Translation Elongation Factor 1 Functions in the Yeast Saccharomyces cerevisiae M. Anand, L. Valente, A. Carr-Schmid, R. Munshi, O. Olarewaju, P.A. Ortiz, and T.G. Kinzy 439 Mechanism of Elongation Factor G Function in tRNA Translocation on the Ribosome W. Wintermeyer, A. Savelsbergh, Y.P. Semenkov, V.I. Katunin, and M.V. Rodnina 449 Modulation of Translation Termination Mechanisms by cis- and trans-Acting Factors D.M. Janzen and A.P. Geballe 459 Protein tRNA Mimicry in Translation Termination Y. Nakamura, M. Uno, T. Toyoda, T. Fujiwara, and K. Ito 469 Regulation of Protein Synthesis Mitogenic and Nutritional Signals Are Transduced into Translational Efficiency of TOP mRNAs E. Hornstein, H. Tang, and O. Meyuhas 477 Double-stranded RNA-binding Proteins and the Control of Protein Synthesis and Cell Growth L.M. Parker, I. Fierro-Monti, T.W. Reichman, S. Gunnery, and M.B. Mathews 485 Translational Regulation in the Cellular Response to Biosynthetic Load on the Endoplasmic Reticulum H.P. Harding, I. Novoa, A. Bertolotti, H. Zeng, Y. Zhang, F. Urano, C. Jousse, and D. Ron 499 A Novel Stress-response Protein That Binds at the Ribosomal Subunit Interface and Arrests Translation D.E. Agafonov, V.A. Kolb, and A.S. Spirin 509 The Fourth Step of Protein Synthesis: Disassembly of the Posttermination Complex Is Catalyzed by Elongation Factor G and Ribosome Recycling Factor, a Near-perfect Mimic of tRNA A. Kaji, M.C. Kiel, G. Hirokawa, A.R. Muto, Y. Inokuchi, and H. Kaji 515 Structure, Function, and Regulation of Free and Membrane-bound Ribosomes: The View from Their Substrates and Products A.E. Johnson, J.-C. Chen, J.J. Flanagan, Y. Miao, Y. Shao, J. Lin, and P.E. Bock 531 The Active 80S Ribosome-Sec61 Complex R. Beckmann, C.M.T. Spahn, J. Frank, and G. Blobel 543 Ribosome Biogenesis Ribosomal RNA Genes, RNA Polymerases, Nucleolar Structures, and Synthesis of rRNA in the Yeast Saccharomyces cerevisiae M. Nomura 555 Economics of Ribosome Biosynthesis J.R. Warner, J. Vilardell, and J.H. Sohn 567 Ribosome Biogenesis: Role of Small Nucleolar RNA in Maturation of Eukaryotic rRNA S.A. Gerbi, A.V. Borovjagin, M. Ezrokhi, and T.S. Lange 575 Thermodynamics and Kinetics of Central Domain Assembly M.I. Recht and J.R. Williamson 591 Nuclear Export of the Large Ribosomal Subunit A.W. Johnson, J.H.-N. Ho, G. Kallstrom, C. Trotta, E. Lund, L. Kahan, J. Dahlberg, and J. Hedges 599 Summary: The Ribosome in the 21st Century: The Post-structural Era P.B. Moore 607
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