Science - USA (2022-06-10)

(Maropa) #1

  1. P. Emsley, K. Cowtan, Coot: Model-building tools for molecular
    graphics.Acta Crystallogr. D Biol. Crystallogr. 60 , 2126– 2132
    (2004). doi:10.1107/S0907444904019158; pmid: 15572765

  2. L. Holm, Using Dali for protein structure comparison.
    Methods Mol. Biol. 2112 ,29–42 (2020). doi:10.1007/978-1-
    0716-0270-6_3; pmid: 32006276

  3. K. Tunyasuvunakoolet al., Highly accurate protein structure
    prediction for the human proteome.Nature 596 ,590–596 (2021).
    doi:10.1038/s41586-021-03828-1;pmid: 34293799

  4. F. Madeiraet al., The EMBL-EBI search and sequence analysis
    tools APIs in 2019.Nucleic Acids Res. 47 , W636–W641
    (2019). doi:10.1093/nar/gkz268; pmid: 30976793

  5. X. Robert, P. Gouet, Deciphering key features in protein
    structures with the new ENDscript server.Nucleic Acids Res.
    42 , W320–W324 (2014). doi:10.1093/nar/gku316;
    pmid: 24753421

  6. C. J. Williamset al., MolProbity: More and better reference data
    for improved all-atom structure validation.Protein Sci. 27 ,
    293 – 315 (2018). doi:10.1002/pro.3330; pmid: 29067766

  7. T. D. Goddardet al., UCSF ChimeraX: Meeting modern
    challenges in visualization and analysis.Protein Sci. 27 ,14 – 25
    (2018). doi:10.1002/pro.3235; pmid: 28710774
    59. S. H. Scheres, RELION: Implementation of a Bayesian approach
    to cryo-EM structure determination.J. Struct. Biol. 180 ,
    519 – 530 (2012). doi:10.1016/j.jsb.2012.09.006;
    pmid: 23000701


ACKNOWLEDGMENTS
We thank the staff of the Cryo-EM Core and the Computing Core of
Westlake University for technical support.Funding:This work was
supported by the National Natural Science Foundation of China
(grant 31930059 to Y.S.), Westlake University (start-up funds
to Y.S.), The China Postdoctoral Science Foundation (grant
2021M692888 to X. Zhan), and the National Postdoctoral Program
for Innovative Talents of China (grant BX2021268 to X. Zhan).
Author contributions:Y.S. conceived and supervised the project.
X. Zhu, P.W., and C.Z. prepared the sample. G.H., C.Z., X. Zhan,
K.L., and J.L. collected the EM data. G.H., C.Z., X. Zhan, and
K.L. processed the EM data. G.H. performed the cryo-EM SPA
calculation. X. Zhan built the models. Q.Z., C.Y., Q.T., and M.L.
provided critical support. All authors analyzed the structure.
G.H., C.Z., X. Zhan, and Y.S. wrote the manuscript.Competing
interests:The authors declare no competing interests.Data and
materials availability:The atomic coordinates of the CR subunit

and NTD2 of Nup358 have been deposited in the PDB with
accession codes 7FIK and 7FIL, respectively. The EM maps for the
CR core region, the Nup358 region, and the NTD2 for Nup358 have
been deposited in the Electron Microscopy Data Bank with the
accession codes EMD-31600, EMD-31601, and EMD-31602,
respectively.License information:Copyright © 2022 the authors,
some rights reserved; exclusive licensee American Association
for the Advancement of Science. No claim to original US
government works.https://www.science.org/about/science-
licenses-journal-article-reuse

SUPPLEMENTARY MATERIALS
science.org/doi/10.1126/science.abl8280
Figs. S1 to S18
Tables S1 to S5
MDAR Reproducibility Checklist
View/request a protocol for this paper fromBio-protocol.

Submitted 7 August 2021; resubmitted 30 September 2021
Accepted 10 May 2022
10.1126/science.abl8280

Zhuet al., Science 376 , eabl8280 (2022) 10 June 2022 10 of 10


RESEARCH | STRUCTURE OF THE NUCLEAR PORE
Free download pdf