+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-1873 | |||||||||
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Title | The flagellar cap, HAP2 pentamer | |||||||||
Map data | This is a HAP2 pentamer. | |||||||||
Sample |
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Keywords | flagellar cap / self assembly / motor protein / flagellum | |||||||||
Biological species | Escherichia coli (E. coli) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 26.0 Å | |||||||||
Authors | Maki-Yonekura S / Yonekura K / Namba K | |||||||||
Citation | Journal: Proc Natl Acad Sci U S A / Year: 2003 Title: Domain movements of HAP2 in the cap-filament complex formation and growth process of the bacterial flagellum. Authors: Saori Maki-Yonekura / Koji Yonekura / Keiichi Namba / Abstract: The cap at the growing end of the bacterial flagellum is essential for its growth, remaining stably attached while permitting the insertion of flagellin transported from the cytoplasm through the ...The cap at the growing end of the bacterial flagellum is essential for its growth, remaining stably attached while permitting the insertion of flagellin transported from the cytoplasm through the narrow central channel. We analyzed the structure of the isolated cap in its frozen hydrated state by electron cryomicroscopy. The 3D density map now shows detailed features of domains and their connections, giving reliable volumes and masses, making assignment of the domains to the amino acid sequence possible. A model of the cap-filament complex built with an atomic model of the filament allows a quantitative analysis of the cap domain movements on cap binding and rotation that promotes the efficient self assembly of flagellin during the filament growth process. | |||||||||
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_1873.map.gz | 448.3 KB | EMDB map data format | |
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Header (meta data) | emd-1873-v30.xml emd-1873.xml | 6.5 KB 6.5 KB | Display Display | EMDB header |
Images | 1873.png | 64.1 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-1873 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-1873 | 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_1873.map.gz / Format: CCP4 / Size: 475.6 KB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | This is a HAP2 pentamer. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 3.45 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 : Flagellar hook-associated protein 2, HAP2
Entire | Name: Flagellar hook-associated protein 2, HAP2 |
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Components |
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-Supramolecule #1000: Flagellar hook-associated protein 2, HAP2
Supramolecule | Name: Flagellar hook-associated protein 2, HAP2 / type: sample / ID: 1000 / Details: The sample was monodisperse / Oligomeric state: Decamer / Number unique components: 1 |
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-Macromolecule #1: Flagellar cap
Macromolecule | Name: Flagellar cap / type: protein_or_peptide / ID: 1 / Name.synonym: Flagellar hook-associated protein 2 / Recombinant expression: Yes |
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Source (natural) | Organism: Escherichia coli (E. coli) |
Recombinant expression | Organism: Escherichia coli BL21(DE3) (bacteria) / Recombinant plasmid: pKOT134 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Vitrification | Cryogen name: ETHANE / Instrument: HOMEMADE PLUNGER / Details: Vitrification instrument: Manual freezing |
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-Electron microscopy
Microscope | JEOL 3000SFF |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy |
Sample stage | Specimen holder: Top-entry / Specimen holder model: JEOL |
-Image processing
Final reconstruction | Applied symmetry - Point group: C5 (5 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 26.0 Å / Resolution method: FSC 0.5 CUT-OFF / Software - Name: Hand-made, programs |
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