The Mechanism for Activation of GTP Hydrolysis on the Ribosome

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Items 101–200 of 360

  1. Archaeal ribosomal stalk protein interacts with translation factors in a nucleotide-independent manner via its conserved C terminus
    Naoko Nomura, Takayoshi Honda, Kentaro Baba, Takao Naganuma, Takehito Tanzawa, Fumio Arisaka, Masanori Noda, Susumu Uchiyama, Isao Tanaka, Min Yao et al. · 2012 · Proceedings of the National Academy of Sciences
  2. Elongation factor-Tu can repetitively engage aminoacyl-tRNA within the ribosome during the proofreading stage of tRNA selection
    Justin C. Morse, Dylan J. Girodat, Benjamin J. Burnett, Mikael Holm, Roger B. Altman, Karissa Y. Sanbonmatsu, Hans‐Joachim Wieden, Scott C. Blanchard · 2020 · Proceedings of the National Academy of Sciences
  3. The Busiest of All Ribosomal Assistants: Elongation Factor Tu
    Darius Kavaliauskas, Poul Nissen, Charlotte Rohde Knudsen · 2012 · Biochemistry
  4. Crystal structure of eukaryotic ribosome and its complexes with inhibitors
    Gulnara Zh. Yusupova, Marat Yusupov · 2017 · Philosophical Transactions of the Royal Society B Biological Sciences
  5. Structural Basis for Conserved Regulation and Adaptation of the Signal Recognition Particle Targeting Complex
    Klemens Wild, Gert Bange, Domantas Motiejunas, Judith F. Kribelbauer-Swietek, Astrid Hendricks, Bernd Segnitz, Rebecca C. Wade, Irmgard Sinning · 2016 · Journal of Molecular Biology
  6. Structural consequences of the interaction of RbgA with a 50S ribosomal subunit assembly intermediate
    Amal Seffouh, Nikhil Jain, Dushyant Jahagirdar, Kaustuv Basu, Aida Razi, Xiaodan Ni, Alba Guarné, Robert A. Britton, Joaquı́n Ortega · 2019 · Nucleic Acids Research
  7. Ribosome-induced tuning of GTP hydrolysis by a translational GTPase
    Cristina Maracci, Frank Peske, Ev Dannies, Corinna Pohl, Marina V. Rodnina · 2014 · Proceedings of the National Academy of Sciences
  8. The central role of protein S12 in organizing the structure of the decoding site of the ribosome
    Hasan DeMi̇rci̇, Leyi Wang, Frank V. Murphy, Eileen L. Murphy, Jennifer F. Carr, Scott C. Blanchard, G. Jogl, Albert E. Dahĺberg, Steven T. Gregory · 2013 · RNA
  9. Combining Sense and Nonsense Codon Reassignment for Site-Selective Protein Modification with Unnatural Amino Acids
    Zhenling Cui, Sergey Mureev, Mark E. Polinkovsky, Zakir Tnimov, Zhong Guo, Thomas Durek, Alun Jones, Kirill A. Alexandrov · 2016 · ACS Synthetic Biology
  10. Chimeric Plantibody Passively Protects Mice against Aerosolized Ricin Challenge
    Erin K. Sully, Kevin J. Whaley, Natasha Bohorova, Ognian Bohorov, Charles A. Goodman, Do H. Kim, Michael H. Pauly, Jesús Velasco, Ernie Hiatt, Josh Morton et al. · 2014 · Clinical and Vaccine Immunology
  11. Interaction of Ricin and Shiga Toxins with Ribosomes
    Nilgun E. Tumer, Xiao-Ping Li · 2011 · Current topics in microbiology and immunology
  12. Control of mRNA Translation by Versatile ATP-Driven Machines
    Milan Gerovac, Robert Tampé · 2018 · Trends in Biochemical Sciences
  13. Elongation Factor Ts Directly Facilitates the Formation and Disassembly of the Escherichia coli Elongation Factor Tu·GTP·Aminoacyl-tRNA Ternary Complex
    Benjamin J. Burnett, Roger B. Altman, Ryan Ferrao, José Luís Pérez Alejo, Navdep Kaur, Joshua Kanji, Scott C. Blanchard · 2013 · Journal of Biological Chemistry
  14. Dysregulation of mRNA translation and energy metabolism in cancer
    Matthew Leibovitch, Ivan Topisirović · 2017 · Advances in Biological Regulation
  15. Coarse-Grained Structure-Based Model for RNA-Protein Complexes Developed by Fluctuation Matching
    Naoto Hori, Shoji Takada · 2012 · Journal of Chemical Theory and Computation
  16. Quality control of mRNA decoding on the bacterial ribosome
    Marina V. Rodnina · 2012 · Advances in protein chemistry and structural biology
  17. Following movement of domain IV of elongation factor G during ribosomal translocation
    Enea Salsi, Elie N. Farah, Jillian Dann, Dmitri N. Ermolenko · 2014 · Proceedings of the National Academy of Sciences
  18. Toxins MazF and MqsR cleave Escherichia coli rRNA precursors at multiple sites
    Toomas Mets, Markus Lippus, David W. Schryer, Aivar Liiv, Villu Kasari, Anton Paier, Ülo Maiväli, Jaanus Rèmme, Tanel Tenson, Niilo Kaldalu · 2016 · RNA Biology
  19. The conserved GTPase HflX is a ribosome splitting factor that binds to the E-site of the bacterial ribosome
    Mackenzie L. Coatham, Harland E. Brandon, Jeffrey J. Fischer, Tobias Schümmer, Hans‐Joachim Wieden · 2016 · Nucleic Acids Research
  20. Arginine Residues on the Opposite Side of the Active Site Stimulate the Catalysis of Ribosome Depurination by Ricin A Chain by Interacting with the P-protein Stalk
    Xiaoping Li, Peter C. Kahn, Jennifer Nielsen Kahn, Przemysław Grela, Nilgun E. Tumer · 2013 · Journal of Biological Chemistry
  21. Evolutionary tuning impacts the design of bacterial tRNAs for the incorporation of unnatural amino acids by ribosomes
    Olke C. Uhlenbeck, Jared M. Schrader · 2018 · Current Opinion in Chemical Biology
  22. Small-Molecule Inhibitors of Ricin and Shiga Toxins
    Paul G. Wahome, Jon D. Robertus, Nicholas John Mantis · 2011 · Current topics in microbiology and immunology
  23. Targeting ricin to the ribosome
    Kerrie L. May, Qing Yan, Nilgun E. Tumer · 2013 · Toxicon
  24. Structure of BipA in GTP form bound to the ratcheted ribosome
    Veerendra Kumar, Yun Chen, Rya Ero, Tofayel Uddin Ahmed, Jackie Tan, Zhe Li, Andrew See Weng Wong, Shashi Bhushan, Yong‐Gui Gao · 2015 · Proceedings of the National Academy of Sciences
  25. Comment on “The Mechanism for Activation of GTP Hydrolysis on the Ribosome”
    Anders Liljas, Måns Ehrenberg, Johan Åqvist · 2011 · Science
  26. Flipping of the Ribosomal A-Site Adenines Provides a Basis for tRNA Selection
    Xiancheng Zeng, Jeetender Chugh, Anette Casiano‐Negroni, Hashim M. Al‐Hashimi, Charles L. Brooks · 2014 · Journal of Molecular Biology
  27. The enigmatic ribosomal stalk
    Anders Liljas, Suparna Sanyal · 2018 · Quarterly Reviews of Biophysics
  28. A Master Switch Couples Mg2+-Assisted Catalysis to Domain Motion in B. stearothermophilus Tryptophanyl-tRNA Synthetase
    Violetta Weinreb, Li Li, Charles W. Carter · 2012 · Structure
  29. Structural basis for translation termination by archaeal RF1 and GTP-bound EF1α complex
    Kan Kobayashi, Kazuki Saito, Ryuichiro Ishitani, Koichi Ito, Osamu Nureki · 2012 · Nucleic Acids Research
  30. Exceptionally large entropy contributions enable the high rates of GTP hydrolysis on the ribosome
    Johan Åqvist, Shina Caroline Lynn Kamerlin · 2015 · Scientific Reports
  31. A tRNA body with high affinity for EF-Tu hastens ribosomal incorporation of unnatural amino acids
    Ka-Weng Ieong, Michael Yu. Pavlov, Marek Kwiatkowski, Måns Ehrenberg, Anthony C. Forster · 2014 · RNA
  32. Crystal structures of the human elongation factor eEFSec suggest a non-canonical mechanism for selenocysteine incorporation
    Malgorzata Dobosz-Bartoszek, Mark H. Pinkerton, Zbyszek Otwinowski, Srinivas Chakravarthy, Dieter G. Söll, Paul R. Copeland, Miljan Simonović · 2016 · Nature Communications
  33. The Selenocysteine-specific Elongation Factor Contains a Novel and Multi-functional Domain
    Jonathan González-Flores, Nirupama Gupta, Louise W. DeMong, Paul R. Copeland · 2012 · Journal of Biological Chemistry
  34. The impact of the stringent response on TRAFAC GTPases and prokaryotic ribosome assembly.
    Bennison, Daniel J., Irving, Sophie E., Corrigan, Rebecca M. · 2019 · Cells
  35. Contribution of intersubunit bridges to the energy barrier of ribosomal translocation
    Qi Liu, Kurt L. Fredrick · 2012 · Nucleic Acids Research
  36. Convergent evolution of AUA decoding in bacteria and archaea
    Tsutomu Suzuki, Tomoyuki Numata · 2014 · RNA Biology
  37. Structures of Eukaryotic Ribosomal Stalk Proteins and Its Complex with Trichosanthin, and Their Implications in Recruiting Ribosome-Inactivating Proteins to the Ribosomes
    Andrew Choi, Eddie Wong, Ka-Ming Lee, Kam‐Bo Wong · 2015 · Toxins
  38. Characterizing and Alleviating Substrate Limitations for Improved in vitro Ribosome Construction
    Yi Liu, Brian R. Fritz, Mark Joseph Anderson, Jennifer A. Schoborg, Michael C. Jewett · 2014 · ACS Synthetic Biology
  39. Identification of a second GTP-bound magnesium ion in archaeal initiation factor 2
    Etienne Dubiez, Alexey V. Aleksandrov, Christine Lazennec‐Schurdevin, Yves Méchulam, Emmanuelle Schmitt · 2015 · Nucleic Acids Research
  40. The P 1/ P 2 proteins of the human ribosomal stalk are required for ribosome binding and depurination by ricin in human cells
    Kerrie L. May, Xiao‐Ping Li, Francisco Martínez‐Azorín, Juan P. G. Ballesta, Przemysław Grela, Marek Tchórzewski, Nilgun E. Tumer · 2012 · FEBS Journal
  41. Characterization of a new toxin from the entomopathogenic fungus Metarhizium anisopliae: the ribotoxin anisoplin
    Miriam Olombrada, Pilar Medina, Flor Budia, José G. Gavilanes, Álvaro Martínez‐del‐Pozo, Lucía Garciá‐Ortega · 2016 · Biological Chemistry
  42. Extensions, Extra Factors, and Extreme Complexity: Ribosomal Structures Provide Insights into Eukaryotic Translation
    Melanie Bianca Weisser, Nenad Ban · 2019 · Cold Spring Harbor Perspectives in Biology
  43. The space between notes: emerging roles for translationally silent ribosomes
    Patrick R. Smith, Sapna C. Pandit, Sarah Loerch, Zachary T. Campbell · 2022 · Trends in Biochemical Sciences
  44. The Conformation of a Catalytic Loop Is Central to GTPase Activity on the Ribosome
    Johan Åqvist, Shina Caroline Lynn Kamerlin · 2014 · Biochemistry
  45. Multiplication of Ribosomal P-Stalk Proteins Contributes to the Fidelity of Translation
    Leszek Wawiórka, Eliza Molestak, Monika Szajwaj, Barbara Michalec‐Wawiórka, Mateusz Mołoń, Lidia Borkiewicz, Przemysław Grela, Aleksandra Boguszewska, Marek Tchórzewski · 2017 · Molecular and Cellular Biology
  46. Roles of elusive translational GTPases come to light and inform on the process of ribosome biogenesis in bacteria
    Michelle R. Gibbs, Kurt L. Fredrick · 2017 · Molecular Microbiology
  47. Didemnin B and ternatin-4 differentially inhibit conformational changes in eEF1A required for aminoacyl-tRNA accommodation into mammalian ribosomes
    Manuel F. Juette, Jordan D. Carelli, Emily J. Rundlet, Alan Brown, Sichen Shao, Angelica Ferguson, Michael R. Wasserman, Mikael Holm, Jack Taunton, Scott C. Blanchard · 2022 · eLife
  48. Reorganization of an intersubunit bridge induced by disparate 16S ribosomal ambiguity mutations mimics an EF-Tu-bound state
    Crystal E. Fagan, J.A. Dunkle, Tatsuya Maehigashi, Mai N. Dang, Aishwarya Devaraj, Stacey J. Miles, Daoming Qin, Kurt L. Fredrick, Christine M. Dunham · 2013 · Proceedings of the National Academy of Sciences
  49. High-resolution structures of a thermophilic eukaryotic 80S ribosome reveal atomistic details of translocation
    Miglė Kišonaitė, Klemens Wild, Karine Lapouge, Thomas Ruppert, Irmgard Sinning · 2022 · Nature Communications
  50. RsgA couples the maturation state of the 30S ribosomal decoding center to activation of its GTPase pocket
    Jorge Pedro López-Alonso, Tatsuya Kaminishi, Takeshi Kikuchi, Yuya Hirata, Idoia Iturrioz, Neha Dhimole, Andreas Schedlbauer, Yoichi Hase, Simon Goto, Daisuke Kurita et al. · 2017 · Nucleic Acids Research
  51. A monovalent cation acts as structural and catalytic cofactor in translational GTPases
    Bernhard Kuhle, Ralf Ficner · 2014 · The EMBO Journal
  52. Crystal structure analysis of the translation factor RF3 (release factor 3)
    Kiyohito Kihira, Yoshihiro Shimizu, Yasuhito Shomura, Naoki Shibata, Masaya Kitamura, Atsushi Nakagawa, Takuya Ueda, Kozo Ochi, Yoshiki Higuchi · 2012 · FEBS Letters
  53. Role of a ribosomal RNA phosphate oxygen during the EF-G–triggered GTP hydrolysis
    Miriam Koch, Sara Flür, Christoph Kreutz, Eric Ennifar, Ronald Micura, Norbert Polacek · 2015 · Proceedings of the National Academy of Sciences
  54. Ribosome engineering to promote new crystal forms
    M. Selmer, Yong‐Gui Gao, Albert Weixlbaumer, Venki Ramakrishnan · 2012 · Acta Crystallographica Section D Biological Crystallography
  55. Natural products as drugs and tools for influencing core processes of eukaryotic mRNA translation
    Luisa D. Burgers, Robert Fürst · 2021 · Pharmacological Research
  56. Common Mechanism of Activated Catalysis in P-loop Fold Nucleoside Triphosphatases—United in Diversity
    Maria I. Kozlova, Daria N. Shalaeva, Daria V. Dibrova, Armen Y. Mulkidjanian · 2022 · Biomolecules
  57. 38 Uncoupling of GTP hydrolysis from eIF6 release on the ribosome causes Shwachman-Diamond syndrome
    Andrew J. Finch, Christine Hilcenko, Nicolas Basse, Lesley F. Drynan, Beatriz Goyenechea, Tobias Menne, Á. González Fernández, Peter J. Simpson, Clive S. D’Santos, Mark Johan Arends et al. · 2011 · Leukemia Research
  58. SmpB as the handyman of tmRNA during trans-translation
    Brice Felden, Reynald Gillet · 2011 · RNA Biology
  59. Human ribosomal P1-P2 heterodimer represents an optimal docking site for ricin A chain with a prominent role for P1 C-terminus
    Przemysław Grela, Xiaoping Li, Patrycja Horbowicz‐Drożdżal, Monika Dźwierzyńska, Marek Tchórzewski, Nilgun E. Tumer · 2017 · Scientific Reports
  60. Single-Molecule Fluorescence Applied to Translation
    Arjun Prabhakar, Elisabetta Viani Puglisi, Joseph Daniel Puglisi · 2018 · Cold Spring Harbor Perspectives in Biology
  61. Catalytic promiscuity in Pseudomonas aeruginosa arylsulfatase as an example of chemistry‐driven protein evolution
    Jinghui Luo, Bert van Loo, Shina Caroline Lynn Kamerlin · 2012 · FEBS Letters
  62. Close proximity of phosphorylation sites to ligand in the phosphoproteome of the extreme thermophile T hermus thermophilus HB 8
    Yoshio Takahata, Masao Inoue, Kwang Jin Kim, Yota Iio, Masaaki Miyamoto, Ryoji Masui, Yasushi Ishihama, Seiki Kuramitsu · 2012 · PROTEOMICS
  63. Elucidating the GTP Hydrolysis Mechanism in FeoB: A Hydrophobic Amino-Acid Substituted GTPase
    Neha Vithani, Sahil Batra, Balaji Prakash, Nisanth N. Nair · 2016 · ACS Catalysis
  64. Challenges and advances in the computational modeling of biological phosphate hydrolysis
    Dušan Petrović, Klaudia Szeler, Shina Caroline Lynn Kamerlin · 2018 · Chemical Communications
  65. One molecule at a time
    Mikael Käll · 2012 · Nature Nanotechnology
  66. Sordarin— An anti‐fungal antibiotic with a unique modus operandi
    Yutian Shao, Eliza Molestak, Weike Su, M. Stankevič, Marek Tchórzewski · 2021 · British Journal of Pharmacology
  67. Structure of the ciliogenesis-associated CPLANE complex
    Gerasimos Langousis, Simone Cavadini, Niels Boegholm, Esben Lorentzen, Georg Kempf, Patrick Matthias · 2022 · Science Advances
  68. Recognition of 3′ nucleotide context and stop codon readthrough are determined during mRNA translation elongation
    Nikita Biziaev, Elizaveta Sokolova, Dmitry V. Yanvarev, I. Yu. Toropygin, Alexey V. Shuvalov, Tatiana Egorova, Elena Z. Alkalaeva · 2022 · Journal of Biological Chemistry
  69. A conserved histidine in switch-II of EF-G moderates release of inorganic phosphate
    Ravi Kiran Koripella, Mikael Holm, Daniel F. A. R. Dourado, Chandra Sekhar Mandava, Samuel Coulbourn Flores, Suparna Sanyal · 2015 · Scientific Reports
  70. E. coli elongation factor Tu bound to a GTP analogue displays an open conformation equivalent to the GDP-bound form
    Jesper Johansen, Darius Kavaliauskas, Shawn H. Pfeil, Mickaël Blaise, Barry S. Cooperman, Yale E. Goldman, Søren Thirup, Charlotte Rohde Knudsen · 2018 · Nucleic Acids Research
  71. Mutational analysis of the ribosome assembly GTPase RbgA provides insight into ribosome interaction and ribosome-stimulated GTPase activation
    Megha Gulati, Nikhil Jain, Baskaran Anand, Balaji Prakash, Robert A. Britton · 2013 · Nucleic Acids Research
  72. Conserved Motifs in Different Classes of GTPases Dictate their Specific Modes of Catalysis
    Johan Åqvist, Shina Caroline Lynn Kamerlin · 2016 · ACS Catalysis
  73. EF-Tu dynamics during pre-translocation complex formation: EF-Tu·GDP exits the ribosome via two different pathways
    Wei Liu, Chunlai Chen, Darius Kavaliauskas, Charlotte Rohde Knudsen, Yale E. Goldman, Barry S. Cooperman · 2015 · Nucleic Acids Research
  74. Distortion of tRNA upon Near-cognate Codon Recognition on the Ribosome
    Joerg Mittelstaet, Andrey L. Konevega, Marina V. Rodnina · 2011 · Journal of Biological Chemistry
  75. Mechanism of activation of elongation factor Tu by ribosome: Catalytic histidine activates GTP by protonation
    Alexey V. Aleksandrov, Martin J. Field · 2013 · RNA
  76. The ribotoxin α-sarcin can cleave the sarcin/ricin loop on late 60S pre-ribosomes
    Miriam Olombrada, Cohue Peña, Olga Rodríguez‐Galán, Purnima Klingauf‐Nerurkar, Daniela Portugal-Calisto, Michaela Oborská‐Oplová, Martin Altvater, José G. Gavilanes, Álvaro Martínez‐del‐Pozo, Jesús de la Cruz et al. · 2020 · Nucleic Acids Research
  77. Bridging the gap between ribosome structure and biochemistry by mechanistic computations
    Johan Åqvist, Christoffer Lind, Johan Sund, Göran Wallin · 2012 · Current Opinion in Structural Biology
  78. Selenocysteine Insertion Sequence (SECIS)-binding Protein 2 Alters Conformational Dynamics of Residues Involved in tRNA Accommodation in 80 S Ribosomes
    Kelvin Caban, Paul R. Copeland · 2012 · Journal of Biological Chemistry
  79. Response to Comment on “The Mechanism for Activation of GTP Hydrolysis on the Ribosome”
    R.M. Voorhees, T.M. Schmeing, Ann C. Kelley, Venki Ramakrishnan · 2011 · Science
  80. The mechanics of ribosomal translocation
    John Achenbach, Knud H. Nierhaus · 2014 · Biochimie
  81. Revelation of a Catalytic Calcium-Binding Site Elucidates Unusual Metal Dependence of a Human Apyrase
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  82. Crystal structure of the full-length bacterial selenocysteine-specific elongation factor SelB
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  83. Long-range interdomain communications in eIF5B regulate GTP hydrolysis and translation initiation
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  84. Frameshifting dynamics
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  85. On elongation factor eEFSec, its role and mechanism during selenium incorporation into nascent selenoproteins
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  86. tRNA Dissociation from EF-Tu after GTP Hydrolysis: Primary Steps and Antibiotic Inhibition
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  87. Examining the promiscuous phosphatase activity of Pseudomonas aeruginosa arylsulfatase: A comparison to analogous phosphatases
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  88. Stability and Function at High Temperature. What Makes a Thermophilic GTPase Different from Its Mesophilic Homologue
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  90. A Sixty-Year Research and Development of Trichosanthin, a Ribosome-Inactivating Protein
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  91. Role of aIF5B in archaeal translation initiation
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  93. The effect of magnesium ions on triphosphate hydrolysis
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  94. Divalent ions tune the kinetics of a bacterial GTPase center rRNA folding transition from secondary to tertiary structure
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  95. Functional analysis of the uL11 protein impact on translational machinery
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  96. Mechanism of Translation Termination: RF1 Dissociation Follows Dissociation of RF3 from the Ribosome
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  97. EF-Tu and EF-G are activated by allosteric effects
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  98. Translation initiation without IF2-dependent GTP hydrolysis
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  100. Interaction of tRNA with Eukaryotic Ribosome
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