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- EMDB-1641: Helical reconstruction of the bacterial L-type flagella filament -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-1641 | |||||||||
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Title | Helical reconstruction of the bacterial L-type flagella filament | |||||||||
![]() | This is a cryo-EM map of L-type flagellin including data up to 4 Angstrom resolution. | |||||||||
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![]() | bacterial flagellum | |||||||||
Function / homology | ![]() TLR5 cascade / MyD88 cascade initiated on plasma membrane / NFkB and MAPK activation mediated by TRAF6 / The IPAF inflammasome / bacterial-type flagellum / structural molecule activity / extracellular region Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 4.0 Å | |||||||||
![]() | Maki-Yonekura S / Yonekura K / Namba K | |||||||||
![]() | ![]() Title: Conformational change of flagellin for polymorphic supercoiling of the flagellar filament. Authors: Saori Maki-Yonekura / Koji Yonekura / Keiichi Namba / ![]() Abstract: The bacterial flagellar filament is a helical propeller rotated by the flagellar motor for bacterial locomotion. The filament is a supercoiled assembly of a single protein, flagellin, and is formed ...The bacterial flagellar filament is a helical propeller rotated by the flagellar motor for bacterial locomotion. The filament is a supercoiled assembly of a single protein, flagellin, and is formed by 11 protofilaments. For bacterial taxis, the reversal of motor rotation switches the supercoil between left- and right-handed, both of which arise from combinations of two distinct conformations and packing interactions of the L-type and R-type protofilaments. Here we report an atomic model of the L-type straight filament by electron cryomicroscopy and helical image analysis. Comparison with the R-type structure shows interesting features: an orientation change of the outer core domains (D1) against the inner core domains (D0) showing almost invariant orientation and packing, a conformational switching within domain D1, and the conformational flexibility of domains D0 and D1 with their spoke-like connection for tight molecular packing. | |||||||||
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 | ![]() | 454.8 KB | ![]() | |
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Header (meta data) | ![]() ![]() | 7.7 KB 7.7 KB | Display Display | ![]() |
Images | ![]() | 170.6 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 259.7 KB | Display | ![]() |
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Full document | ![]() | 259.3 KB | Display | |
Data in XML | ![]() | 4.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3a5xMC 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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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | This is a cryo-EM map of L-type flagellin including data up to 4 Angstrom resolution. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
-Entire : S. enterica serovar Typhimurium L-type flagella filament
Entire | Name: S. enterica serovar Typhimurium L-type flagella filament |
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Components |
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-Supramolecule #1000: S. enterica serovar Typhimurium L-type flagella filament
Supramolecule | Name: S. enterica serovar Typhimurium L-type flagella filament type: sample / ID: 1000 / Number unique components: 1 |
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-Macromolecule #1: Flagella filament
Macromolecule | Name: Flagella filament / type: protein_or_peptide / ID: 1 / Name.synonym: Flagella filament / Oligomeric state: Helical assembly / Recombinant expression: No / Database: NCBI |
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Source (natural) | Organism: ![]() Strain: SJW1660 synonym: Salmonella enterica subsp. enterica serovar Typhimurium Location in cell: Outside cell |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | helical reconstruction |
Aggregation state | filament |
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Sample preparation
Vitrification | Cryogen name: ETHANE / Instrument: OTHER |
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Electron microscopy
Microscope | JEOL 3000SFF |
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Temperature | Average: 4 K |
Image recording | Category: FILM / Film or detector model: KODAK SO-163 FILM / Digitization - Scanner: OTHER / Digitization - Sampling interval: 5 µm |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Sample stage | Specimen holder: Top entry / Specimen holder model: JEOL |
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Image processing
Final reconstruction | Algorithm: OTHER / Resolution.type: BY AUTHOR / Resolution: 4.0 Å / Resolution method: OTHER / Software - Name: Handmade |
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CTF correction | Details: Each filament |