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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-3746 | |||||||||
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Title | The archaellum of Pyrococcus furiosus | |||||||||
![]() | helical segment of the Pyrococcus furiosus archaellum | |||||||||
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![]() | archaellar flagellum glycoprotein helical filament / Cell adhesion | |||||||||
Function / homology | archaeal-type flagellum / Flagellin/pilin, N-terminal / Flagellin, archaea / Archaebacterial flagellin / archaeal or bacterial-type flagellum-dependent cell motility / structural molecule activity / Flagellin![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 4.2 Å | |||||||||
![]() | Daum B / Vonck J / Bellack A / Chaudhuri P / Reichelt R / Albers S-V / Rachel R / Kuehlbrandt W | |||||||||
![]() | ![]() Title: Structure and organisation of the archaellum machinery. Authors: Bertram Daum / Janet Vonck / Annett Bellack / Paushali Chaudhury / Robert Reichelt / Sonja-Verena Albers / Reinhard Rachel / Werner Kühlbrandt / ![]() ![]() Abstract: The archaellum is the macromolecular machinery that Archaea use for propulsion or surface adhesion, enabling them to proliferate and invade new territories. The molecular composition of the ...The archaellum is the macromolecular machinery that Archaea use for propulsion or surface adhesion, enabling them to proliferate and invade new territories. The molecular composition of the archaellum and of the motor that drives it appears to be entirely distinct from that of the functionally equivalent bacterial flagellum and flagellar motor. Yet, the structure of the archaellum machinery is scarcely known. Using combined modes of electron cryo-microscopy (cryoEM), we have solved the structure of the archaellum filament at 4.2 Å resolution and visualise the architecture and organisation of its motor complex . This allows us to build a structural model combining the archaellum and its motor complex, paving the way to a molecular understanding of archaeal swimming motion. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 5.8 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.7 KB 16.7 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 6.9 KB | Display | ![]() |
Images | ![]() | 170.5 KB | ||
Filedesc metadata | ![]() | 5.7 KB | ||
Others | ![]() ![]() | 23.4 MB 23.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 497.3 KB | Display | ![]() |
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Full document | ![]() | 496.4 KB | Display | |
Data in XML | ![]() | 12.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5o4uMC ![]() 3759C ![]() 3760C M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | helical segment of the Pyrococcus furiosus archaellum | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.12 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Half map: half map 1 for helical segment of the Pyrococcus furiosus archaellum
File | emd_3746_half_map_1.map | ||||||||||||
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Annotation | half map 1 for helical segment of the Pyrococcus furiosus archaellum | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half map 2 for helical segment of the Pyrococcus furiosus archaellum
File | emd_3746_half_map_2.map | ||||||||||||
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Annotation | half map 2 for helical segment of the Pyrococcus furiosus archaellum | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : archaellum
Entire | Name: archaellum |
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Components |
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-Supramolecule #1: archaellum
Supramolecule | Name: archaellum / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all / Details: helical fragment of the archaellum |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 21.7 KDa |
-Macromolecule #1: Flagellin
Macromolecule | Name: Flagellin / type: protein_or_peptide / ID: 1 / Number of copies: 16 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 22.28335 KDa |
Sequence | String: MAKKGAVGIG TLIVFIAMVL VAAVAAAVLI QTSGYLQQKS QATGRETTQE VASGIKVLSV VGKTDSNKTY VEKLAIYISP NAGSEGIDL NNTRVVLSNG TVQAVLKYEK TAYHKGAVGD VFNASTAWNL SNTNFGIIVL QDADNSVDQN YPTLNKGDIV V ITVKVGEG ...String: MAKKGAVGIG TLIVFIAMVL VAAVAAAVLI QTSGYLQQKS QATGRETTQE VASGIKVLSV VGKTDSNKTY VEKLAIYISP NAGSEGIDL NNTRVVLSNG TVQAVLKYEK TAYHKGAVGD VFNASTAWNL SNTNFGIIVL QDADNSVDQN YPTLNKGDIV V ITVKVGEG NGVFGKGIPP RTKITGKVIP EFGAPGVIEF TTPSTYTSEV IELQ UniProtKB: Flagellin |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | helical reconstruction |
Aggregation state | filament |
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Sample preparation
Buffer | pH: 7 |
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Grid | Model: Quantifoil R2/2 / Material: COPPER / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. / Pretreatment - Atmosphere: AIR |
Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK III / Details: blotting for 7-10 seconds. |
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Electron microscopy
Microscope | JEOL 3200FSC |
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Specialist optics | Energy filter - Name: In-column Omega Filter / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Number real images: 297 / Average exposure time: 8.0 sec. / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Calibrated defocus max: 3.0 µm / Calibrated defocus min: 1.0 µm / Calibrated magnification: 44642 / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 4.2 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 30000 |
Sample stage | Specimen holder model: JEOL 3200FSC CRYOHOLDER / Cooling holder cryogen: NITROGEN |