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PMID: 19748337 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Review

The nuclear pore complex has entered the atomic age.

Structure (London, England : 1993) ·Vol. 17 ·No. 9 ·2009-09-09 ·Pages 1156-68

Brohawn SG, Partridge JR, Whittle JR, Schwartz TU

Abstract

Nuclear pore complexes (NPCs) perforate the nuclear envelope and represent the exclusive passageway into and out of the nucleus of the eukaryotic cell. Apart from their essential transport function, components of the NPC have important, direct roles in nuclear organization and in gene regulation. Because of its central role in cell biology, it is of considerable interest to determine the NPC structure at atomic resolution. The complexity of these large, 40-60 MDa protein assemblies has for decades limited such structural studies. More recently, exploiting the intrinsic modularity of the NPC, structural biologists are making progress toward understanding this nanomachine in molecular detail. Structures of building blocks of the stable, architectural scaffold of the NPC have been solved, and distinct models for their assembly proposed. Here we review the status of the field and lay out the challenges and the next steps toward a full understanding of the NPC at atomic resolution.

MeSH Terms
Nuclear Pore Nuclear Proteins/chemistry Protein Conformation
Chemicals
Nuclear Proteins
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Brohawn Stephen G
Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Partridge James R
Whittle James R R
Schwartz Thomas U
References (107)
107 references, click to expand
  1. Yeast genetics to dissect the nuclear pore complex and nucleocytoplasmic trafficking.
    Annu Rev Genet. 1997;31:277-313 PMID: 9442897
  2. Comparative genomics and structural biology of the molecular innovations of eukaryotes.
    Curr Opin Struct Biol. 2006 Jun;16(3):409-19 PMID: 16679012
  3. The three-dimensional structure of the autoproteolytic, nuclear pore-targeting domain of the human nucleoporin Nup98.
    Mol Cell. 2002 Aug;10(2):347-58 PMID: 12191480
  4. A pathway separate from the central channel through the nuclear pore complex for inorganic ions and small macromolecules.
    J Biol Chem. 2007 Oct 26;282(43):31437-43 PMID: 17726020
  5. Simple fold composition and modular architecture of the nuclear pore complex.
    Proc Natl Acad Sci U S A. 2006 Feb 14;103(7):2172-7 PMID: 16461911
  6. Snapshots of nuclear pore complexes in action captured by cryo-electron tomography.
    Nature. 2007 Oct 4;449(7162):611-5 PMID: 17851530
  7. Correlation between structure and mass distribution of the nuclear pore complex and of distinct pore complex components.
    J Cell Biol. 1990 Apr;110(4):883-94 PMID: 2324201
  8. Architectural nucleoporins Nup157/170 and Nup133 are structurally related and descend from a second ancestral element.
    J Biol Chem. 2009 Oct 9;284(41):28442-28452 PMID: 19674973
  9. ELYS is a dual nucleoporin/kinetochore protein required for nuclear pore assembly and proper cell division.
    Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17801-6 PMID: 17098863
  10. Exporting RNA from the nucleus to the cytoplasm.
    Nat Rev Mol Cell Biol. 2007 Oct;8(10):761-73 PMID: 17786152
  11. Crystallographic and biochemical analysis of the Ran-binding zinc finger domain.
    J Mol Biol. 2009 Aug 14;391(2):375-89 PMID: 19505478
  12. Regulating access to the genome: nucleocytoplasmic transport throughout the cell cycle.
    Cell. 2003 Feb 21;112(4):441-51 PMID: 12600309
  13. Structural analysis of the nuclear pore complex by integrated approaches.
    Curr Opin Struct Biol. 2009 Apr;19(2):226-32 PMID: 19327984
  14. A fence-like coat for the nuclear pore membrane.
    Mol Cell. 2008 Dec 26;32(6):815-26 PMID: 19111661
  15. Vertebrate Nup53 interacts with the nuclear lamina and is required for the assembly of a Nup93-containing complex.
    Mol Biol Cell. 2005 May;16(5):2382-94 PMID: 15703211
  16. Integrating diverse data for structure determination of macromolecular assemblies.
    Annu Rev Biochem. 2008;77:443-77 PMID: 18318657
  17. Age-dependent deterioration of nuclear pore complexes causes a loss of nuclear integrity in postmitotic cells.
    Cell. 2009 Jan 23;136(2):284-95 PMID: 19167330
  18. Inner nuclear membrane protein transport is mediated by multiple mechanisms.
    Biochem Soc Trans. 2008 Dec;36(Pt 6):1373-7 PMID: 19021558
  19. Structural basis of the nic96 subcomplex organization in the nuclear pore channel.
    Mol Cell. 2008 Jan 18;29(1):46-55 PMID: 18206968
  20. The nucleoporins Nup170p and Nup157p are essential for nuclear pore complex assembly.
    J Cell Biol. 2009 May 4;185(3):459-73 PMID: 19414608
  21. Structural constraints on autoprocessing of the human nucleoporin Nup98.
    Protein Sci. 2008 Mar;17(3):494-505 PMID: 18287282
  22. Internuclear exchange of an inner nuclear membrane protein (p55) in heterokaryons: in vivo evidence for the interaction of p55 with the nuclear lamina.
    J Cell Biol. 1990 Dec;111(6 Pt 1):2225-34 PMID: 2277058
  23. Structural evidence for common ancestry of the nuclear pore complex and vesicle coats.
    Science. 2008 Nov 28;322(5906):1369-73 PMID: 18974315
  24. Structural basis for cargo regulation of COPII coat assembly.
    Cell. 2008 Aug 8;134(3):474-84 PMID: 18692470
  25. The yeast ULP2 (SMT4) gene encodes a novel protease specific for the ubiquitin-like Smt3 protein.
    Mol Cell Biol. 2000 Apr;20(7):2367-77 PMID: 10713161
  26. Evolution of the beta-propeller fold.
    Proteins. 2008 May 1;71(2):795-803 PMID: 17979191
  27. Removal of a single pore subcomplex results in vertebrate nuclei devoid of nuclear pores.
    Mol Cell. 2003 Apr;11(4):853-64 PMID: 12718872
  28. Structural and functional studies of Nup107/Nup133 interaction and its implications for the architecture of the nuclear pore complex.
    Mol Cell. 2008 Jun 20;30(6):721-31 PMID: 18570875
  29. Life of a clathrin coat: insights from clathrin and AP structures.
    Nat Rev Mol Cell Biol. 2006 Jan;7(1):32-44 PMID: 16493411
  30. Cytosolic Sec13p complex is required for vesicle formation from the endoplasmic reticulum in vitro.
    J Cell Biol. 1993 Feb;120(4):865-75 PMID: 8432727
  31. Virtual gating and nuclear transport: the hole picture.
    Trends Cell Biol. 2003 Dec;13(12):622-8 PMID: 14624840
  32. The crystal structure of the Ran-Nup153ZnF2 complex: a general Ran docking site at the nuclear pore complex.
    Structure. 2008 Jul;16(7):1116-25 PMID: 18611384
  33. Structure, dynamics and function of nuclear pore complexes.
    Trends Cell Biol. 2008 Oct;18(10):456-66 PMID: 18786826
  34. The molecular architecture of the nuclear pore complex.
    Nature. 2007 Nov 29;450(7170):695-701 PMID: 18046406
  35. Mechanisms of receptor-mediated nuclear import and nuclear export.
    Traffic. 2005 Mar;6(3):187-98 PMID: 15702987
  36. Protein structures: Structures of desire.
    Nature. 2009 May 7;459(7243):24-7 PMID: 19424134
  37. Functional interaction of Nic96p with a core nucleoporin complex consisting of Nsp1p, Nup49p and a novel protein Nup57p.
    EMBO J. 1995 Jan 3;14(1):76-87 PMID: 7828598
  38. Yeast nuclear pore complexes have a cytoplasmic ring and internal filaments.
    J Struct Biol. 2004 Mar;145(3):272-88 PMID: 14960378
  39. The crystal structure of mouse Nup35 reveals atypical RNP motifs and novel homodimerization of the RRM domain.
    J Mol Biol. 2006 Oct 13;363(1):114-24 PMID: 16962612
  40. Three-dimensional structure and flexibility of a membrane-coating module of the nuclear pore complex.
    Nat Struct Mol Biol. 2009 Jul;16(7):782-8 PMID: 19503077
  41. Translocation through the nuclear pore: Kaps pave the way.
    Bioessays. 2009 Apr;31(4):466-77 PMID: 19274657
  42. Nup192p is a conserved nucleoporin with a preferential location at the inner site of the nuclear membrane.
    J Biol Chem. 1999 Aug 6;274(32):22646-51 PMID: 10428845
  43. Nuclear pore complex assembly through the cell cycle: regulation and membrane organization.
    FEBS Lett. 2008 Jun 18;582(14):2004-16 PMID: 18328825
  44. A lattice model of the nuclear pore complex.
    Commun Integr Biol. 2009 May;2(3):205-7 PMID: 19641729
  45. Structure of Nup58/45 suggests flexible nuclear pore diameter by intermolecular sliding.
    Science. 2007 Mar 23;315(5819):1729-32 PMID: 17379812
  46. Components of coated vesicles and nuclear pore complexes share a common molecular architecture.
    PLoS Biol. 2004 Dec;2(12):e380 PMID: 15523559
  47. The inner nuclear envelope as a transcription factor resting place.
    EMBO Rep. 2007 Oct;8(10):914-9 PMID: 17906672
  48. When protein folding is simplified to protein coiling: the continuum of solenoid protein structures.
    Trends Biochem Sci. 2000 Oct;25(10):509-15 PMID: 11050437
  49. Protein folds propelled by diversity.
    Prog Biophys Mol Biol. 2001;76(1-2):103-30 PMID: 11389935
  50. Architecture of the Xenopus nuclear pore complex revealed by three-dimensional cryo-electron microscopy.
    J Cell Biol. 1993 Jul;122(1):1-19 PMID: 8314837
  51. Caenorhabditis elegans nucleoporins Nup93 and Nup205 determine the limit of nuclear pore complex size exclusion in vivo.
    Mol Biol Cell. 2003 Dec;14(12):5104-15 PMID: 12937276
  52. A general amphipathic alpha-helical motif for sensing membrane curvature.
    Nat Struct Mol Biol. 2007 Feb;14(2):138-46 PMID: 17220896
  53. The yeast nucleoporin Nup188p interacts genetically and physically with the core structures of the nuclear pore complex.
    J Cell Biol. 1996 Jun;133(6):1153-62 PMID: 8682855
  54. Functional characterization of a Nup159p-containing nuclear pore subcomplex.
    Mol Biol Cell. 1998 Dec;9(12):3475-92 PMID: 9843582
  55. Structural basis for the high-affinity binding of nucleoporin Nup1p to the Saccharomyces cerevisiae importin-beta homologue, Kap95p.
    J Mol Biol. 2005 Jun 10;349(3):515-25 PMID: 15878174
  56. Nanomechanical basis of selective gating by the nuclear pore complex.
    Science. 2007 Oct 26;318(5850):640-3 PMID: 17916694
  57. The mRNA export protein DBP5 binds RNA and the cytoplasmic nucleoporin NUP214 in a mutually exclusive manner.
    Nat Struct Mol Biol. 2009 Mar;16(3):247-54 PMID: 19219046
  58. Crystal structure of the N-terminal domain of the human protooncogene Nup214/CAN.
    Proc Natl Acad Sci U S A. 2007 Feb 6;104(6):1783-8 PMID: 17264208
  59. Mapping the dynamic organization of the nuclear pore complex inside single living cells.
    Nat Cell Biol. 2004 Nov;6(11):1114-21 PMID: 15502822
  60. Adaptive evolution drives divergence of a hybrid inviability gene between two species of Drosophila.
    Nature. 2003 Jun 12;423(6941):715-9 PMID: 12802326
  61. The N-terminal domain of Nup159 forms a beta-propeller that functions in mRNA export by tethering the helicase Dbp5 to the nuclear pore.
    Mol Cell. 2004 Dec 3;16(5):749-60 PMID: 15574330
  62. Modularity within the architecture of the nuclear pore complex.
    Curr Opin Struct Biol. 2005 Apr;15(2):221-6 PMID: 15837182
  63. Further observations on the nuclear envelope of the animal cell.
    J Biophys Biochem Cytol. 1959 Oct;6:147-56 PMID: 13843146
  64. Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins.
    EMBO J. 2002 Feb 1;21(3):387-97 PMID: 11823431
  65. Structure of the anaphase-promoting complex/cyclosome interacting with a mitotic checkpoint complex.
    Science. 2009 Mar 13;323(5920):1477-81 PMID: 19286556
  66. Structural and functional analysis of Nup133 domains reveals modular building blocks of the nuclear pore complex.
    J Cell Biol. 2004 Nov 22;167(4):591-7 PMID: 15557116
  67. The yeast nuclear pore complex: composition, architecture, and transport mechanism.
    J Cell Biol. 2000 Feb 21;148(4):635-51 PMID: 10684247
  68. The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport.
    Mol Cell Biol. 2001 Dec;21(23):7944-55 PMID: 11689687
  69. Evolution of the Drosophila nuclear pore complex results in multiple hybrid incompatibilities.
    Science. 2009 Feb 6;323(5915):779-82 PMID: 19197064
  70. The nuclear life of nucleoporins.
    Dev Cell. 2007 Aug;13(2):164-5 PMID: 17681127
  71. The nuclear pore complex: structure, function, and dynamics.
    Crit Rev Eukaryot Gene Expr. 2000;10(1):101-12 PMID: 10813398
  72. Biology and biophysics of the nuclear pore complex and its components.
    Int Rev Cell Mol Biol. 2008;267:299-342 PMID: 18544502
  73. Dynamic nuclear pore complexes: life on the edge.
    Cell. 2006 Jun 16;125(6):1041-53 PMID: 16777596
  74. Depletion of a single nucleoporin, Nup107, prevents the assembly of a subset of nucleoporins into the nuclear pore complex.
    Proc Natl Acad Sci U S A. 2003 Feb 4;100(3):981-5 PMID: 12552102
  75. Comparative spatial localization of protein-A-tagged and authentic yeast nuclear pore complex proteins by immunogold electron microscopy.
    J Struct Biol. 2000 Apr;129(2-3):295-305 PMID: 10806080
  76. Isolation of the yeast nuclear pore complex.
    J Cell Biol. 1993 Nov;123(4):771-83 PMID: 8227139
  77. Purification of NSP1 reveals complex formation with 'GLFG' nucleoporins and a novel nuclear pore protein NIC96.
    EMBO J. 1993 Aug;12(8):3061-71 PMID: 7688296
  78. A saturated FG-repeat hydrogel can reproduce the permeability properties of nuclear pore complexes.
    Cell. 2007 Aug 10;130(3):512-23 PMID: 17693259
  79. Structural basis for the interaction between the Tap/NXF1 UBA domain and FG nucleoporins at 1A resolution.
    J Mol Biol. 2003 Feb 21;326(3):849-58 PMID: 12581645
  80. Identification and characterization of nuclear pore subcomplexes in mitotic extract of human somatic cells.
    Biochem Biophys Res Commun. 1999 Jan 19;254(2):417-23 PMID: 9918853
  81. Structure and organization of coat proteins in the COPII cage.
    Cell. 2007 Jun 29;129(7):1325-36 PMID: 17604721
  82. mRNA nuclear export at a glance.
    J Cell Sci. 2009 Jun 15;122(Pt 12):1933-7 PMID: 19494120
  83. NDC1: a nuclear periphery component required for yeast spindle pole body duplication.
    J Cell Biol. 1993 Aug;122(4):743-51 PMID: 8349727
  84. Nuclear pore complexes form immobile networks and have a very low turnover in live mammalian cells.
    J Cell Biol. 2001 Jul 9;154(1):71-84 PMID: 11448991
  85. Nuclear architecture and spatial positioning help establish transcriptional states of telomeres in yeast.
    Nat Cell Biol. 2002 Mar;4(3):214-21 PMID: 11862215
  86. Nuclear mRNA export requires specific FG nucleoporins for translocation through the nuclear pore complex.
    J Cell Biol. 2007 Sep 24;178(7):1121-32 PMID: 17875746
  87. Architecture of a coat for the nuclear pore membrane.
    Cell. 2007 Dec 28;131(7):1313-26 PMID: 18160040
  88. The structure of the scaffold nucleoporin Nup120 reveals a new and unexpected domain architecture.
    Structure. 2009 Aug 12;17(8):1082-91 PMID: 19576787
  89. Structure of the protein phosphatase 2A holoenzyme.
    Cell. 2006 Dec 15;127(6):1239-51 PMID: 17174897
  90. Determining the architectures of macromolecular assemblies.
    Nature. 2007 Nov 29;450(7170):683-94 PMID: 18046405
  91. MEL-28/ELYS is required for the recruitment of nucleoporins to chromatin and postmitotic nuclear pore complex assembly.
    EMBO Rep. 2007 Feb;8(2):165-72 PMID: 17235358
  92. Proteins connecting the nuclear pore complex with the nuclear interior.
    J Cell Biol. 1999 Mar 8;144(5):839-55 PMID: 10085285
  93. Structural biology of cellular machines.
    Trends Cell Biol. 2006 Mar;16(3):144-50 PMID: 16459078
  94. Crystal structure of nucleoporin Nic96 reveals a novel, intricate helical domain architecture.
    J Biol Chem. 2007 Nov 30;282(48):34904-12 PMID: 17897938
  95. Structural biology of nucleocytoplasmic transport.
    Annu Rev Biochem. 2007;76:647-71 PMID: 17506639
  96. Cryo-electron tomography provides novel insights into nuclear pore architecture: implications for nucleocytoplasmic transport.
    J Mol Biol. 2003 Apr 18;328(1):119-30 PMID: 12684002
  97. Structural basis for the recognition of a nucleoporin FG repeat by the NTF2-like domain of the TAP/p15 mRNA nuclear export factor.
    Mol Cell. 2001 Sep;8(3):645-56 PMID: 11583626
  98. Role of the Ndc1 interaction network in yeast nuclear pore complex assembly and maintenance.
    J Cell Biol. 2009 May 4;185(3):475-91 PMID: 19414609
  99. Systematic kinetic analysis of mitotic dis- and reassembly of the nuclear pore in living cells.
    J Cell Biol. 2008 Mar 10;180(5):857-65 PMID: 18316408
  100. The conserved Nup107-160 complex is critical for nuclear pore complex assembly.
    Cell. 2003 Apr 18;113(2):195-206 PMID: 12705868
  101. Proteomic analysis of the mammalian nuclear pore complex.
    J Cell Biol. 2002 Sep 2;158(5):915-27 PMID: 12196509
  102. Architecture and design of the nuclear pore complex.
    Cell. 1992 Jun 26;69(7):1133-41 PMID: 1617726
  103. Structure and assembly of the Nup84p complex.
    J Cell Biol. 2000 Apr 3;149(1):41-54 PMID: 10747086
  104. Molecular mechanism of the nuclear protein import cycle.
    Nat Rev Mol Cell Biol. 2007 Mar;8(3):195-208 PMID: 17287812
  105. Structural basis for the interaction between FxFG nucleoporin repeats and importin-beta in nuclear trafficking.
    Cell. 2000 Jul 7;102(1):99-108 PMID: 10929717
  106. Structure of a Ran-binding domain complexed with Ran bound to a GTP analogue: implications for nuclear transport.
    Nature. 1999 Mar 4;398(6722):39-46 PMID: 10078529
  107. The nuclear envelope and transcriptional control.
    Nat Rev Genet. 2007 Jul;8(7):507-17 PMID: 17549064
Article Info
Journal
Structure (London, England : 1993)
Abbr.
Structure
ISSN
1878-4186
Published
2009-09-09
Pages
1156-68
Language
English
Region
United States
NLM ID
101087697
PMCID
PMC2776643
Subset
IM
Grants
NIGMS NIH HHS · R01 GM077537 · United States
NIGMS NIH HHS · R01 GM077537-03 · United States
NIGMS NIH HHS · GM077537 · United States
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