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- EMDB-52158: Nuclear ring of the nuclear pore complex from Nup133-deficient mo... -
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Open data
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Basic information
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Title | Nuclear ring of the nuclear pore complex from Nup133-deficient mouse embryonic stem cell | |||||||||
![]() | Nuclear ring of the nuclear pore complex from Nup133-deficient mouse embryonic stem cell | |||||||||
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![]() | complex / nuclear transport / nuclear envelope / TRANSPORT PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 33.4 Å | |||||||||
![]() | Taniguchi R / Beck M | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Nuclear pores safeguard the integrity of the nuclear envelope. Authors: Reiya Taniguchi / Clarisse Orniacki / Jan Philipp Kreysing / Vojtech Zila / Christian E Zimmerli / Stefanie Böhm / Beata Turoňová / Hans-Georg Kräusslich / Valérie Doye / Martin Beck / ![]() ![]() ![]() ![]() ![]() Abstract: Nuclear pore complexes (NPCs) mediate nucleocytoplasmic exchange, which is essential for eukaryotes. Mutations in the central scaffolding components of NPCs are associated with genetic diseases, but ...Nuclear pore complexes (NPCs) mediate nucleocytoplasmic exchange, which is essential for eukaryotes. Mutations in the central scaffolding components of NPCs are associated with genetic diseases, but how they manifest only in specific tissues remains unclear. This is exemplified in Nup133-deficient mouse embryonic stem cells, which grow normally during pluripotency, but differentiate poorly into neurons. Here, using an innovative in situ structural biology approach, we show that Nup133 mouse embryonic stem cells have heterogeneous NPCs with non-canonical symmetries and missing subunits. During neuronal differentiation, Nup133-deficient NPCs frequently disintegrate, resulting in abnormally large nuclear envelope openings. We propose that the elasticity of the NPC scaffold has a protective function for the nuclear envelope and that its perturbation becomes critical under conditions that impose an increased mechanical load onto nuclei. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 3.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 13.7 KB 13.7 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 4.7 KB | Display | ![]() |
Images | ![]() | 134.4 KB | ||
Masks | ![]() | 3.8 MB | ![]() | |
Filedesc metadata | ![]() | 4.2 KB | ||
Others | ![]() ![]() | 3.5 MB 3.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 826.5 KB | Display | ![]() |
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Full document | ![]() | 826 KB | Display | |
Data in XML | ![]() | 9.3 KB | Display | |
Data in CIF | ![]() | 12.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article ( |
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | Nuclear ring of the nuclear pore complex from Nup133-deficient mouse embryonic stem cell | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 10.728 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Half map: Half map of the nuclear ring of the...
File | emd_52158_half_map_1.map | ||||||||||||
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Annotation | Half map of the nuclear ring of the nuclear pore complex from Nup133-deficient mouse embryonic stem cell | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map of the nuclear ring of the...
File | emd_52158_half_map_2.map | ||||||||||||
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Annotation | Half map of the nuclear ring of the nuclear pore complex from Nup133-deficient mouse embryonic stem cell | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Inner ring of the nuclear pore complex from wild-type mouse embry...
Entire | Name: Inner ring of the nuclear pore complex from wild-type mouse embryonic stem cell |
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Components |
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-Supramolecule #1: Inner ring of the nuclear pore complex from wild-type mouse embry...
Supramolecule | Name: Inner ring of the nuclear pore complex from wild-type mouse embryonic stem cell type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | subtomogram averaging |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7 |
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Grid | Model: Quantifoil / Material: GOLD / Mesh: 200 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 70 % / Chamber temperature: 300 K / Instrument: LEICA EM GP |
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Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number real images: 6 / Average electron dose: 2.5 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 4.5 µm / Nominal defocus min: 2.5 µm |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |