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Yorodumi- EMDB-72961: Composite structure of the sheathed flagellar motor in Vibrio cho... -
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Open data
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Basic information
| Entry | ![]() | ||||||||||||||||||
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| Title | Composite structure of the sheathed flagellar motor in Vibrio cholerae adopting a lower FOMC conformation | ||||||||||||||||||
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Keywords | In situ cryo-EM / Vibrio cholerae / flagellar motor / assembled state. / MOTOR PROTEIN | ||||||||||||||||||
| Function / homology | Function and homology informationbacterial-type flagellum basal body, distal rod, L ring / bacterial-type flagellum stator complex / bacterial-type flagellum basal body, distal rod, P ring / bacterial-type flagellum basal body, distal rod / bacterial-type flagellum basal body, rod / bacterial-type flagellum hook / bacterial-type flagellum basal body / bacterial-type flagellum-dependent swarming motility / bacterial-type flagellum / cytoskeletal motor activity ...bacterial-type flagellum basal body, distal rod, L ring / bacterial-type flagellum stator complex / bacterial-type flagellum basal body, distal rod, P ring / bacterial-type flagellum basal body, distal rod / bacterial-type flagellum basal body, rod / bacterial-type flagellum hook / bacterial-type flagellum basal body / bacterial-type flagellum-dependent swarming motility / bacterial-type flagellum / cytoskeletal motor activity / bacterial-type flagellum-dependent cell motility / cell outer membrane / outer membrane-bounded periplasmic space / structural molecule activity / cytosol Similarity search - Function | ||||||||||||||||||
| Biological species | Vibrio cholerae O1 biovar El Tor str. N16961 (bacteria) | ||||||||||||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 3.6 Å | ||||||||||||||||||
Authors | Guo WB / Yue J / Liu J / Jun L | ||||||||||||||||||
| Funding support | United States, 5 items
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Citation | Journal: To Be PublishedTitle: In-situ cryo-EM structures reveal mechanisms of sheathed flagellar assembly, rotation, and disassembly in Vibrio cholerae Authors: Wangbiao G / Jian Y / Rajeev K / Jun L | ||||||||||||||||||
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Structure visualization
| Supplemental images |
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Downloads & links
-EMDB archive
| Map data | emd_72961.map.gz | 322.6 MB | EMDB map data format | |
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| Header (meta data) | emd-72961-v30.xml emd-72961.xml | 43.6 KB 43.6 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_72961_fsc.xml | 14.7 KB | Display | FSC data file |
| Images | emd_72961.png | 87.8 KB | ||
| Masks | emd_72961_msk_1.map | 343 MB | Mask map | |
| Filedesc metadata | emd-72961.cif.gz | 8.4 KB | ||
| Others | emd_72961_additional_1.map.gz emd_72961_additional_2.map.gz emd_72961_additional_3.map.gz emd_72961_additional_4.map.gz emd_72961_half_map_1.map.gz emd_72961_half_map_2.map.gz | 195.5 MB 16.7 MB 91.4 MB 168.7 MB 316 MB 316 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-72961 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-72961 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 9yh6MC ![]() 9ydoC ![]() 9ydsC ![]() 9ydtC ![]() 9ydxC ![]() 9yecC ![]() 9yedC ![]() 9yeeC ![]() 9yfgC C: citing same article ( M: atomic model generated by this map |
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| Similar structure data | Similarity search - Function & homology F&H Search |
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Links
| EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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| Related items in Molecule of the Month |
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Map
| File | Download / File: emd_72961.map.gz / Format: CCP4 / Size: 343 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
| Voxel size | X=Y=Z: 1.43 Å | ||||||||||||||||||||||||||||||||||||
| Density |
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| Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
| Details | EMDB XML:
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-Supplemental data
-Mask #1
| File | emd_72961_msk_1.map | ||||||||||||
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-Additional map: #1
| File | emd_72961_additional_1.map | ||||||||||||
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-Additional map: #2
| File | emd_72961_additional_2.map | ||||||||||||
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-Additional map: #3
| File | emd_72961_additional_3.map | ||||||||||||
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-Additional map: #4
| File | emd_72961_additional_4.map | ||||||||||||
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-Half map: #1
| File | emd_72961_half_map_1.map | ||||||||||||
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-Half map: #2
| File | emd_72961_half_map_2.map | ||||||||||||
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Sample components
+Entire : Vibrio cholerae DflhG
+Supramolecule #1: Vibrio cholerae DflhG
+Macromolecule #1: Flagellar basal-body rod protein FlgG
+Macromolecule #2: Flagellar basal-body rod protein FlgF
+Macromolecule #3: Flagellar hook protein FlgE
+Macromolecule #4: Flagellar L-ring protein
+Macromolecule #5: Flagellar P-ring protein
+Macromolecule #6: Flagellar protein FlgT
+Macromolecule #7: Sodium-type flagellar protein MotY
+Macromolecule #8: Sodium-type flagellar protein MotX
+Macromolecule #9: FlgP
+Macromolecule #10: Chemotaxis protein PomB
+Macromolecule #11: Lipoprotein
+Macromolecule #12: FlgO domain-containing protein
+Macromolecule #13: FliF
-Experimental details
-Structure determination
| Method | cryo EM |
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Processing | single particle reconstruction |
| Aggregation state | cell |
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Sample preparation
| Buffer | pH: 7.4 |
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| Vitrification | Cryogen name: ETHANE-PROPANE |
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Electron microscopy
| Microscope | TFS KRIOS |
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| Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 70.0 e/Å2 |
| Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
| Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.6 µm |
| Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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About Yorodumi



Keywords
Vibrio cholerae O1 biovar El Tor str. N16961 (bacteria)
Authors
United States, 5 items
Citation






















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Processing
FIELD EMISSION GUN

