+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-2151 | |||||||||
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Title | Electron cryo-microscopy of escrt-III helical polymer | |||||||||
Map data | Reconstruction of chmp2a-3 tubes | |||||||||
Sample |
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Keywords | virus budding / membrane deformation | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 22.4 Å | |||||||||
Authors | Effantin G / Dordor A / Sandrin V / Martinelli N / Sundquist WI / Schoehn G / Weissenhorn W | |||||||||
Citation | Journal: Cell Microbiol / Year: 2013 Title: ESCRT-III CHMP2A and CHMP3 form variable helical polymers in vitro and act synergistically during HIV-1 budding. Authors: Grégory Effantin / Aurélien Dordor / Virginie Sandrin / Nicolas Martinelli / Wesley I Sundquist / Guy Schoehn / Winfried Weissenhorn / Abstract: The endosomal sorting complex required for transport-III (ESCRT-III) proteins are essential for budding of some enveloped viruses, for the formation of intraluminal vesicles at the endosome and for ...The endosomal sorting complex required for transport-III (ESCRT-III) proteins are essential for budding of some enveloped viruses, for the formation of intraluminal vesicles at the endosome and for the abscission step of cytokinesis. ESCRT-III proteins form polymers that constrict membrane tubes, leading to fission. We have used electron cryomicroscopy to determine the molecular organization of pleiomorphic ESCRT-III CHMP2A-CHMP3 polymers. The three-dimensional reconstruction at 22 Å resolution reveals a helical organization of filaments of CHMP molecules organized in a head-to-tail fashion. Protease susceptibility experiments indicate that polymerization is achieved via conformational changes that increase the protomer stability. Combinatorial siRNA knockdown experiments indicate that CHMP3 contributes synergistically to HIV-1 budding, and the CHMP3 contribution is ~ 10-fold more pronounced in concert with CHMP2A than with CHMP2B. This is consistent with surface plasmon resonance affinity measurements that suggest sequential CHMP4B-CHMP3-CHMP2A recruitment while showing that both CHMP2A and CHMP2B interact with CHMP4B, in agreement with their redundant functions in HIV-1 budding. Our data thus indicate that the CHMP2A-CHMP3 polymer observed in vitro contributes to HIV-1 budding by assembling on CHMP4B polymers. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_2151.map.gz | 6.8 MB | EMDB map data format | |
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Header (meta data) | emd-2151-v30.xml emd-2151.xml | 9.3 KB 9.3 KB | Display Display | EMDB header |
Images | image2151.jpg | 74.9 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-2151 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-2151 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_2151.map.gz / Format: CCP4 / Size: 29.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Reconstruction of chmp2a-3 tubes | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 3.59 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : ESCRT-III Chmp2a - Chmp3 co-polymer
Entire | Name: ESCRT-III Chmp2a - Chmp3 co-polymer |
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Components |
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-Supramolecule #1000: ESCRT-III Chmp2a - Chmp3 co-polymer
Supramolecule | Name: ESCRT-III Chmp2a - Chmp3 co-polymer / type: sample / ID: 1000 / Number unique components: 2 |
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-Macromolecule #1: chmp2a
Macromolecule | Name: chmp2a / type: protein_or_peptide / ID: 1 Details: chmp2a mbp tag was cleaved by tev protease before imaging Recombinant expression: Yes / Database: NCBI |
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Source (natural) | Organism: Homo sapiens (human) / synonym: human / Location in cell: plasma membrane |
-Macromolecule #2: chmp3
Macromolecule | Name: chmp3 / type: protein_or_peptide / ID: 2 / Recombinant expression: Yes / Database: NCBI |
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Source (natural) | Organism: Homo sapiens (human) / synonym: human / Location in cell: plasma membrane |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | filament |
-Sample preparation
Buffer | pH: 7.6 / Details: 20 mM Hepes pH 7.6, 150 mM NaCl |
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Grid | Details: 400 mesh copper quantifoil grid |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK II |
-Electron microscopy
Microscope | FEI TECNAI F30 |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.3 mm / Nominal magnification: 39000 |
Sample stage | Specimen holder model: SIDE ENTRY, EUCENTRIC |
Date | Oct 10, 2010 |
Image recording | Category: FILM / Film or detector model: KODAK SO-163 FILM / Digitization - Scanner: ZEISS SCAI / Digitization - Sampling interval: 7 µm / Number real images: 78 / Average electron dose: 15 e/Å2 / Bits/pixel: 8 |
Experimental equipment | Model: Tecnai F30 / Image courtesy: FEI Company |
-Image processing
CTF correction | Details: each particle |
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Final reconstruction | Applied symmetry - Helical parameters - Δz: 6.03 Å Applied symmetry - Helical parameters - Δ&Phi: 11.9 ° Applied symmetry - Helical parameters - Axial symmetry: C6 (6 fold cyclic) Algorithm: OTHER / Resolution.type: BY AUTHOR / Resolution: 22.4 Å / Resolution method: FSC 0.5 CUT-OFF / Software - Name: ctffind, bsof, spider, imagic |
Details | The particles were aligned using IHRSR |