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Structure of BipA in GTP form bound to the ratcheted ribosome.

Kumar V, Chen Y, Ero R, Ahmed T, Tan J, Li Z, Wong AS, Bhushan S, Gao YG
Proc Natl Acad Sci U S A 112 10944-9 (2015)
Related entries: 5a9w, 5a9x, 5a9y, 5a9z, 5aa0

Cited: 28 times
EuropePMC logo PMID: 26283392

Abstract

BPI-inducible protein A (BipA) is a member of the family of ribosome-dependent translational GTPase (trGTPase) factors along with elongation factors G and 4 (EF-G and EF4). Despite being highly conserved in bacteria and playing a critical role in coordinating cellular responses to environmental changes, its structures (isolated and ribosome bound) remain elusive. Here, we present the crystal structures of apo form and GTP analog, GDP, and guanosine-3',5'-bisdiphosphate (ppGpp)-bound BipA. In addition to having a distinctive domain arrangement, the C-terminal domain of BipA has a unique fold. Furthermore, we report the cryo-electron microscopy structure of BipA bound to the ribosome in its active GTP form and elucidate the unique structural attributes of BipA interactions with the ribosome and A-site tRNA in the light of its possible function in regulating translation.

Articles - 5a9v mentioned but not cited (2)

  1. Structure of BipA in GTP form bound to the ratcheted ribosome. Kumar V, Chen Y, Ero R, Ahmed T, Tan J, Li Z, Wong AS, Bhushan S, Gao YG. Proc Natl Acad Sci U S A 112 10944-10949 (2015)
  2. Complementary charge-based interaction between the ribosomal-stalk protein L7/12 and IF2 is the key to rapid subunit association. Ge X, Mandava CS, Lind C, Åqvist J, Sanyal S. Proc Natl Acad Sci U S A 115 4649-4654 (2018)


Reviews citing this publication (9)

  1. The magic dance of the alarmones (p)ppGpp. Steinchen W, Bange G. Mol Microbiol 101 531-544 (2016)
  2. Roles of elusive translational GTPases come to light and inform on the process of ribosome biogenesis in bacteria. Gibbs MR, Fredrick K. Mol Microbiol 107 445-454 (2018)
  3. The Impact of the Stringent Response on TRAFAC GTPases and Prokaryotic Ribosome Assembly. Bennison DJ, Irving SE, Corrigan RM. Cells 8 E1313 (2019)
  4. New Insights into Ribosome Structure and Function. Jobe A, Liu Z, Gutierrez-Vargas C, Frank J. Cold Spring Harb Perspect Biol 11 a032615 (2019)
  5. The enigmatic ribosomal stalk. Liljas A, Sanyal S. Q Rev Biophys 51 e12 (2018)
  6. Similarity and diversity of translational GTPase factors EF-G, EF4, and BipA: From structure to function. Ero R, Kumar V, Chen Y, Gao YG. RNA Biol 13 1258-1273 (2016)
  7. Taking a Step Back from Back-Translocation: an Integrative View of LepA/EF4's Cellular Function. Heller JLE, Kamalampeta R, Wieden HJ. Mol Cell Biol 37 e00653-16 (2017)
  8. Functions and Regulation of Translation Elongation Factors. Xu B, Liu L, Song G. Front Mol Biosci 8 816398 (2021)
  9. New perspectives on the molecular mechanisms of stress signalling by the nucleotide guanosine tetraphosphate (ppGpp), an emerging regulator of photosynthesis in plants and algae. Mehrez M, Romand S, Field B. New Phytol 237 1086-1099 (2023)

Articles citing this publication (17)

  1. ABCF ATPases Involved in Protein Synthesis, Ribosome Assembly and Antibiotic Resistance: Structural and Functional Diversification across the Tree of Life. Murina V, Kasari M, Takada H, Hinnu M, Saha CK, Grimshaw JW, Seki T, Reith M, Putrinš M, Tenson T, Strahl H, Hauryliuk V, Atkinson GC. J Mol Biol 431 3568-3590 (2019)
  2. The alarmones (p)ppGpp directly regulate translation initiation during entry into quiescence. Diez S, Ryu J, Caban K, Gonzalez RL, Dworkin J. Proc Natl Acad Sci U S A 117 15565-15572 (2020)
  3. A Global Ramachandran Score Identifies Protein Structures with Unlikely Stereochemistry. Sobolev OV, Afonine PV, Moriarty NW, Hekkelman ML, Joosten RP, Perrakis A, Adams PD. Structure 28 1249-1258.e2 (2020)
  4. Conserved GTPase LepA (Elongation Factor 4) functions in biogenesis of the 30S subunit of the 70S ribosome. Gibbs MR, Moon KM, Chen M, Balakrishnan R, Foster LJ, Fredrick K. Proc Natl Acad Sci U S A 114 980-985 (2017)
  5. The conserved GTPase HflX is a ribosome splitting factor that binds to the E-site of the bacterial ribosome. Coatham ML, Brandon HE, Fischer JJ, Schümmer T, Wieden HJ. Nucleic Acids Res 44 1952-1961 (2016)
  6. Neuron-Like Networks Between Ribosomal Proteins Within the Ribosome. Poirot O, Timsit Y. Sci Rep 6 26485 (2016)
  7. The GTPase BipA expressed at low temperature in Escherichia coli assists ribosome assembly and has chaperone-like activity. Choi E, Hwang J. J Biol Chem 293 18404-18419 (2018)
  8. E. coli elongation factor Tu bound to a GTP analogue displays an open conformation equivalent to the GDP-bound form. Johansen JS, Kavaliauskas D, Pfeil SH, Blaise M, Cooperman BS, Goldman YE, Thirup SS, Knudsen CR. Nucleic Acids Res 46 8641-8650 (2018)
  9. Structure of the GTP Form of Elongation Factor 4 (EF4) Bound to the Ribosome. Kumar V, Ero R, Ahmed T, Goh KJ, Zhan Y, Bhushan S, Gao YG. J Biol Chem 291 12943-12950 (2016)
  10. Functional Analysis of BipA in E. coli Reveals the Natural Plasticity of 50S Subunit Assembly. Gibbs MR, Moon KM, Warner BR, Chen M, Bundschuh R, Foster LJ, Fredrick K. J Mol Biol 432 5259-5272 (2020)
  11. Elongation Factor Tu Switch I Element is a Gate for Aminoacyl-tRNA Selection. Girodat D, Blanchard SC, Wieden HJ, Sanbonmatsu KY. J Mol Biol 432 3064-3077 (2020)
  12. Elucidation of a Novel Role of YebC in Surface Polysaccharides Regulation of Escherichia coli bipA-Deletion. Choi E, Jeon H, Oh C, Hwang J. Front Microbiol 11 597515 (2020)
  13. The Stringent Response Inhibits 70S Ribosome Formation in Staphylococcus aureus by Impeding GTPase-Ribosome Interactions. Bennison DJ, Nakamoto JA, Craggs TD, Milón P, Rafferty JB, Corrigan RM. mBio 12 e0267921 (2021)
  14. The Yersinia pestis GTPase BipA Promotes Pathogenesis of Primary Pneumonic Plague. Crane SD, Banerjee SK, Eichelberger KR, Kurten RC, Goldman WE, Pechous RD. Infect Immun 89 e00673-20 (2021)
  15. Translational GTPase BipA Is Involved in the Maturation of a Large Subunit of Bacterial Ribosome at Suboptimal Temperature. Goh KJ, Ero R, Yan XF, Park JE, Kundukad B, Zheng J, Sze SK, Gao YG. Front Microbiol 12 686049 (2021)
  16. Novel rRNA transcriptional activity of NhaR revealed by its growth recovery for the bipA-deleted Escherichia coli at low temperature. Choi E, Huh A, Hwang J. Front Mol Biosci 10 1175889 (2023)
  17. Structural Analysis of (p)ppGpp Reveals Its Versatile Binding Pattern for Diverse Types of Target Proteins. Kushwaha GS, Patra A, Bhavesh NS. Front Microbiol 11 575041 (2020)


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