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PreprintCited by 3RNA and protein synthesis mechanismsRNA modifications and cancerAdvanced Electron Microscopy Techniques and Applications

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Cryo-EM reconstruction of the human 40S ribosomal subunit at 2.15 Å resolution

Open access
Pellegrino, Simone, Dent, Kyle C., Spikes, Tobias, Warren, Alan J.·2022·bioRxiv (Cold Spring Harbor Laboratory)
DOI 10.1101/2022.01.16.475527

Preprint — published as 10.1093/nar/gkad194

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Abstract

The chemical modification of ribosomal RNA and proteins is critical for ribosome assembly, for protein synthesis and may drive ribosome specialization in development and disease. However, the inability to accurately visualize these modifications has limited mechanistic understanding of the role of these modifications in ribosome function. Here we report the 2.15 Å resolution cryo-EM reconstruction of the human 40S ribosomal subunit. We directly visualize post-transcriptional modifications within the 18S rRNA and post-translational modifications at the N-termini of two ribosomal proteins. Additionally, we interpret the solvation shells in the core regions of the 40S ribosomal subunit and reveal how potassium and magnesium ions establish both universally conserved and eukaryote-specific coordination to promote the stabilization and folding of key ribosomal elements. This work provides unprecedented structural details for the human 40S ribosomal subunit that will serve as an important reference for unraveling the functional role of ribosomal RNA modifications.

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Research works printed but not linked: 65

  1. 10.1038/s41586-018-0193-0 · DOI
  2. 10.1038/s41586-020-2929-x · DOI
  3. 10.3390/biom8040123 · DOI
  4. 10.1038/s41568-020-0253-2 · DOI
  5. 10.1080/15476286.2021.1991167 · DOI
  6. 10.1126/science.abf3546 · DOI
  7. 10.15252/embj.2018100278 · DOI
  8. 10.1016/j.ydbio.2018.02.006 · DOI
  9. 10.1126/science.aba4904 · DOI
  10. 10.1007/BF00360434 · DOI
  11. 10.1038/nature13802 · DOI
  12. 10.1016/j.jsb.2016.04.010 · DOI
  13. Delhermite J , Tafforeau L , Sharma S , Marchand V , Wacheul L , Lattuca R , Desiderio S , Motorin Y , Bellefroid E , Lafontaine DLJ . 2021. Systematic mapping of rRNA 2’-O methylation during frog development and involvement of the methyltransferase Fibrillarin in eye and craniofacial development in Xenopus laevis . BioRxiv 2021.11.25.469989. doi: https://doi.org/10.1101/2021.11.25.469989 · DOI
  14. 10.1093/nar/gkt1279 · DOI
  15. 10.1107/S0907444904019158 · DOI · Paper page
  16. 10.1073/pnas.1707674114 · DOI
  17. 10.1016/j.celrep.2017.10.070 · DOI
  18. 10.1080/15476286.2019.1670598 · DOI
  19. 10.1038/ng0598-32 · DOI · Paper page
  20. 10.1016/j.str.2011.12.014 · DOI · Paper page
  21. 10.1093/nar/gkw810 · DOI
  22. 10.1186/s12943-020-01192-8 · DOI
  23. 10.1038/s41594-021-00669-4 · DOI
  24. 10.1021/ac025747h · DOI
  25. 10.1261/rna.7390804 · DOI
  26. 10.1093/nar/gkw482 · DOI
  27. 10.3389/fonc.2019.00587 · DOI
  28. 10.1107/S2059798319011471 · DOI · Paper page
  29. 10.1371/journal.pone.0203415 · DOI
  30. 10.1016/0022-2836(86)90498-5 · DOI
  31. 10.1016/0022-2836(88)90139-8 · DOI
  32. 10.1016/0300-9084(96)88100-4 · DOI
  33. 10.1042/bj2490459 · DOI
  34. 10.1016/j.ccr.2013.08.013 · DOI
  35. 10.1261/rna.2228510 · DOI
  36. 10.1002/wrna.1266 · DOI
  37. 10.1038/nsmb.2313 · DOI · Paper page
  38. 10.3390/biom8040106 · DOI
  39. 10.1007/978-1-0716-0966-8_7 · DOI
  40. 10.1038/nature24482 · DOI
  41. 10.1021/ac0341261 · DOI
  42. 10.1126/science.1060612 · DOI · Paper page
  43. 10.3390/biom10050783 · DOI
  44. 10.1182/blood.2019004121 · DOI
  45. 10.1016/j.celrep.2014.04.058 · DOI
  46. 10.1038/nmeth.4169 · DOI · Paper page
  47. 10.1093/bioinformatics/btz671 · DOI
  48. 10.1038/s41467-019-10409-4 · DOI · Paper page
  49. 10.1038/nmeth.2115 · DOI
  50. 10.1016/j.cell.2016.10.046 · DOI
  51. 10.1016/j.celrep.2020.03.061 · DOI
  52. 10.1038/onc.2013.89 · DOI
  53. 10.1016/j.molcel.2013.08.011 · DOI
  54. 10.1093/nar/gky811 · DOI
  55. 10.1038/s41592-019-0580-y · DOI
  56. 10.1038/leu.2012.111 · DOI
  57. 10.1182/blood-2012-06-438135 · DOI
  58. 10.1038/s41467-018-04853-x · DOI
  59. 10.7554/eLife.60482 · DOI · Paper page
  60. 10.1002/pro.3330 · DOI · Paper page
  61. 10.1110/ps.041293005 · DOI
  62. 2019, Targeting snoRNAs as an emerging method of therapeutic development for cancer, Am J Cancer Res, 9, 1504
  63. 10.1038/nmeth.4193 · DOI
  64. 10.1038/ncb3563 · DOI
  65. 10.7554/eLife.42166 · DOI

Metadata

Authors
Pellegrino, S., Dent, K. C., Spikes, T., & Warren, A. J.
Affiliations
Wellcome/MRC Cambridge Stem Cell Institute (GB)
Corresponding author
  • Pellegrino, Simone
  • Warren, Alan J.
ORCID
Venue
bioRxiv (Cold Spring Harbor Laboratory)
Publisher
openRxiv
Published
2022-01-16
DOI
10.1101/2022.01.16.475527
OpenAlex
W4206411447
Cited by
3
References
2
Citations by year
2022: 3
Type
posted content
Language
en
Open access
Licence
cc-by-nc-nd
Locations
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • Apollo (University of Cambridge) (submittedVersion, cc-by)
Funders
  • Wellcome Trust (206171/Z/17/Z, Z/17/Z, 202905, 100140, 202905/Z/16/Z, 206171)
  • NIHR Biomedical Research Centre, Royal Marsden NHS Foundation Trust/Institute of Cancer Research
  • National Institute for Health and Care Research
  • Kay Kendall Leukaemia Fund
  • University of Cambridge
  • Blood Cancer UK (12048)
  • Directorate for Biological Sciences
  • Medical Research Council (MC_U105161083, MR/T012412/1)
  • Cambridge Institute for Medical Research, University of Cambridge (100140)
  • Department of Biochemistry, University of Cambridge
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA modifications and cancer
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Structural Biology › Advanced Electron Microscopy Techniques and Applications
Keywords
40S ribosomal subunit, human ribosome, post-transcriptional modification, post-translational modification, solvation shell, potassium ion coordination, magnesium coordination, ribosome assembly, ribosome structure

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