Literature DB >> 29539637

Integrative structure and functional anatomy of a nuclear pore complex.

Seung Joong Kim1, Javier Fernandez-Martinez2, Ilona Nudelman2, Yi Shi3, Wenzhu Zhang3, Barak Raveh1, Thurston Herricks4, Brian D Slaughter5, Joanna A Hogan6, Paula Upla7, Ilan E Chemmama1, Riccardo Pellarin1, Ignacia Echeverria1, Manjunatha Shivaraju5, Azraa S Chaudhury2, Junjie Wang3, Rosemary Williams2, Jay R Unruh5, Charles H Greenberg1, Erica Y Jacobs3, Zhiheng Yu8, M Jason de la Cruz8, Roxana Mironska2, David L Stokes7, John D Aitchison4,9, Martin F Jarrold6, Jennifer L Gerton5, Steven J Ludtke10, Christopher W Akey11, Brian T Chait3, Andrej Sali1, Michael P Rout2.   

Abstract

Nuclear pore complexes play central roles as gatekeepers of RNA and protein transport between the cytoplasm and nucleoplasm. However, their large size and dynamic nature have impeded a full structural and functional elucidation. Here we determined the structure of the entire 552-protein nuclear pore complex of the yeast Saccharomyces cerevisiae at sub-nanometre precision by satisfying a wide range of data relating to the molecular arrangement of its constituents. The nuclear pore complex incorporates sturdy diagonal columns and connector cables attached to these columns, imbuing the structure with strength and flexibility. These cables also tie together all other elements of the nuclear pore complex, including membrane-interacting regions, outer rings and RNA-processing platforms. Inwardly directed anchors create a high density of transport factor-docking Phe-Gly repeats in the central channel, organized into distinct functional units. This integrative structure enables us to rationalize the architecture, transport mechanism and evolutionary origins of the nuclear pore complex.

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Year:  2018        PMID: 29539637      PMCID: PMC6022767          DOI: 10.1038/nature26003

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  132 in total

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Review 2.  Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB.

Authors:  Jill Trewhella; Wayne A Hendrickson; Gerard J Kleywegt; Andrej Sali; Mamoru Sato; Torsten Schwede; Dmitri I Svergun; John A Tainer; John Westbrook; Helen M Berman
Journal:  Structure       Date:  2013-06-04       Impact factor: 5.006

3.  Recommendations of the wwPDB NMR Validation Task Force.

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Journal:  Structure       Date:  2013-09-03       Impact factor: 5.006

4.  Structural characterization by cross-linking reveals the detailed architecture of a coatomer-related heptameric module from the nuclear pore complex.

Authors:  Yi Shi; Javier Fernandez-Martinez; Elina Tjioe; Riccardo Pellarin; Seung Joong Kim; Rosemary Williams; Dina Schneidman-Duhovny; Andrej Sali; Michael P Rout; Brian T Chait
Journal:  Mol Cell Proteomics       Date:  2014-08-26       Impact factor: 5.911

5.  Slide-and-exchange mechanism for rapid and selective transport through the nuclear pore complex.

Authors:  Barak Raveh; Jerome M Karp; Samuel Sparks; Kaushik Dutta; Michael P Rout; Andrej Sali; David Cowburn
Journal:  Proc Natl Acad Sci U S A       Date:  2016-04-18       Impact factor: 11.205

6.  FoXS: a web server for rapid computation and fitting of SAXS profiles.

Authors:  Dina Schneidman-Duhovny; Michal Hammel; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2010-05-27       Impact factor: 16.971

7.  Outcome of the first electron microscopy validation task force meeting.

Authors:  Richard Henderson; Andrej Sali; Matthew L Baker; Bridget Carragher; Batsal Devkota; Kenneth H Downing; Edward H Egelman; Zukang Feng; Joachim Frank; Nikolaus Grigorieff; Wen Jiang; Steven J Ludtke; Ohad Medalia; Pawel A Penczek; Peter B Rosenthal; Michael G Rossmann; Michael F Schmid; Gunnar F Schröder; Alasdair C Steven; David L Stokes; John D Westbrook; Willy Wriggers; Huanwang Yang; Jasmine Young; Helen M Berman; Wah Chiu; Gerard J Kleywegt; Catherine L Lawson
Journal:  Structure       Date:  2012-02-08       Impact factor: 5.006

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Authors:  M P Rout; J V Kilmartin
Journal:  J Cell Biol       Date:  1990-11       Impact factor: 10.539

9.  Nuclear pore basket proteins are tethered to the nuclear envelope and can regulate membrane curvature.

Authors:  Noémi Mészáros; Jakub Cibulka; Maria Jose Mendiburo; Anete Romanauska; Maren Schneider; Alwin Köhler
Journal:  Dev Cell       Date:  2015-05-04       Impact factor: 12.270

10.  In situ structural analysis of the human nuclear pore complex.

Authors:  Alexander von Appen; Jan Kosinski; Lenore Sparks; Alessandro Ori; Amanda L DiGuilio; Benjamin Vollmer; Marie-Therese Mackmull; Niccolo Banterle; Luca Parca; Panagiotis Kastritis; Katarzyna Buczak; Shyamal Mosalaganti; Wim Hagen; Amparo Andres-Pons; Edward A Lemke; Peer Bork; Wolfram Antonin; Joseph S Glavy; Khanh Huy Bui; Martin Beck
Journal:  Nature       Date:  2015-09-23       Impact factor: 49.962

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  153 in total

1.  Split T7 RNA polymerase biosensors to study multiprotein interaction dynamics.

Authors:  Jeffrey A Dewey; Bryan C Dickinson
Journal:  Methods Enzymol       Date:  2020-06-15       Impact factor: 1.600

2.  Atlas of Subcellular RNA Localization Revealed by APEX-Seq.

Authors:  Furqan M Fazal; Shuo Han; Kevin R Parker; Pornchai Kaewsapsak; Jin Xu; Alistair N Boettiger; Howard Y Chang; Alice Y Ting
Journal:  Cell       Date:  2019-06-20       Impact factor: 41.582

Review 3.  From Atoms to Cells: Using Mesoscale Landscapes to Construct Visual Narratives.

Authors:  David S Goodsell; Margaret A Franzen; Tim Herman
Journal:  J Mol Biol       Date:  2018-06-07       Impact factor: 5.469

4.  Mapping the native organization of the yeast nuclear pore complex using nuclear radial intensity measurements.

Authors:  Pascal Vallotton; Sasikumar Rajoo; Matthias Wojtynek; Evgeny Onischenko; Annemarie Kralt; Carina Patrizia Derrer; Karsten Weis
Journal:  Proc Natl Acad Sci U S A       Date:  2019-07-01       Impact factor: 11.205

5.  The Role of Cohesiveness in the Permeability of the Spatial Assemblies of FG Nucleoporins.

Authors:  Chad Gu; Andrei Vovk; Tiantian Zheng; Rob D Coalson; Anton Zilman
Journal:  Biophys J       Date:  2019-03-07       Impact factor: 4.033

Review 6.  Automated Modeling and Validation of Protein Complexes in Cryo-EM Maps.

Authors:  Tristan Cragnolini; Aaron Sweeney; Maya Topf
Journal:  Methods Mol Biol       Date:  2021

7.  Optimizing model representation for integrative structure determination of macromolecular assemblies.

Authors:  Shruthi Viswanath; Andrej Sali
Journal:  Proc Natl Acad Sci U S A       Date:  2018-12-26       Impact factor: 11.205

Review 8.  The Structure of the Nuclear Pore Complex (An Update).

Authors:  Daniel H Lin; André Hoelz
Journal:  Annu Rev Biochem       Date:  2019-03-18       Impact factor: 23.643

Review 9.  Principles for Integrative Structural Biology Studies.

Authors:  Michael P Rout; Andrej Sali
Journal:  Cell       Date:  2019-05-30       Impact factor: 41.582

10.  CM1-driven assembly and activation of yeast γ-tubulin small complex underlies microtubule nucleation.

Authors:  Axel F Brilot; Andrew S Lyon; Alex Zelter; Shruthi Viswanath; Alison Maxwell; Michael J MacCoss; Eric G Muller; Andrej Sali; Trisha N Davis; David A Agard
Journal:  Elife       Date:  2021-05-05       Impact factor: 8.140

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