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Yorodumi- EMDB-37679: Cryo-EM structure of the intact flagellar motor-hook complex in t... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37679 | ||||||||||||
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Title | Cryo-EM structure of the intact flagellar motor-hook complex in the CCW state | ||||||||||||
Map data | |||||||||||||
Sample |
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Keywords | Flagellum / Flagellar motor / C ring / Switch complex / MOTOR PROTEIN | ||||||||||||
Function / homology | Function and homology information bacterial-type flagellum basal body, distal rod, L ring / 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 organization / bacterial-type flagellum basal body, MS ring / bacterial-type flagellum basal body / bacterial-type flagellum-dependent swarming motility / positive chemotaxis / bacterial-type flagellum assembly ...bacterial-type flagellum basal body, distal rod, L ring / 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 organization / bacterial-type flagellum basal body, MS ring / bacterial-type flagellum basal body / bacterial-type flagellum-dependent swarming motility / positive chemotaxis / bacterial-type flagellum assembly / cytoskeletal motor activity / bacterial-type flagellum-dependent cell motility / protein secretion / protein targeting / cell outer membrane / chemotaxis / outer membrane-bounded periplasmic space / structural molecule activity / plasma membrane Similarity search - Function | ||||||||||||
Biological species | Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria) | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 7.4 Å | ||||||||||||
Authors | Tan JX / Zhang L / Zhou Y / Zhu YQ | ||||||||||||
Funding support | China, 3 items
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Citation | Journal: To Be Published Title: Cryo-EM structure of the intact flagellar motor-hook complex in the CCW state Authors: Tan JX / Zhang L / Zhou Y / Zhu YQ | ||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_37679.map.gz | 1.8 GB | EMDB map data format | |
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Header (meta data) | emd-37679-v30.xml emd-37679.xml | 33 KB 33 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_37679_fsc.xml | 28.3 KB | Display | FSC data file |
Images | emd_37679.png | 73.1 KB | ||
Filedesc metadata | emd-37679.cif.gz | 8.7 KB | ||
Others | emd_37679_half_map_1.map.gz emd_37679_half_map_2.map.gz | 1.8 GB 1.8 GB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37679 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37679 | HTTPS FTP |
-Validation report
Summary document | emd_37679_validation.pdf.gz | 914.1 KB | Display | EMDB validaton report |
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Full document | emd_37679_full_validation.pdf.gz | 913.7 KB | Display | |
Data in XML | emd_37679_validation.xml.gz | 35.9 KB | Display | |
Data in CIF | emd_37679_validation.cif.gz | 48.1 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37679 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37679 | HTTPS FTP |
-Related structure data
Related structure data | 8wo5MC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_37679.map.gz / Format: CCP4 / Size: 1.9 GB / 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: 1.1 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Sample components
+Entire : C ring-containing flagellar motor-hook complex in the CCW state
+Supramolecule #1: C ring-containing flagellar motor-hook complex in the CCW state
+Macromolecule #1: Flagellar basal-body rod protein FlgG
+Macromolecule #2: Flagellar L-ring protein
+Macromolecule #3: Flagellar basal body rod protein FlgB
+Macromolecule #4: Flagellar hook-basal body complex protein FliE
+Macromolecule #5: Flagellar basal-body rod protein FlgF
+Macromolecule #6: Flagellar M-ring protein
+Macromolecule #7: Flagellar biosynthetic protein FliQ
+Macromolecule #8: Flagellar biosynthetic protein FliR
+Macromolecule #9: Flagellar biosynthetic protein FliP
+Macromolecule #10: Flagellar basal-body rod protein FlgC
+Macromolecule #11: Flagellar hook protein FlgE
+Macromolecule #12: Flagellar P-ring protein
+Macromolecule #13: Flagellar motor switch protein FliN
+Macromolecule #14: Flagellar motor switch protein FliG
+Macromolecule #15: Flagellar motor switch protein FliM
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 Component:
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Grid | Model: Quantifoil R0.6/1 / Material: GOLD / Mesh: 300 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 180 sec. / Pretreatment - Atmosphere: AIR | ||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV Details: Blot time: 2 Blot force: -5 Wait time: 5 Blot total: 1 Drain time: 2. |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 41.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.5 µm / Nominal magnification: 81000 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
+Image processing
-Atomic model buiding 1
Initial model |
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Refinement | Protocol: RIGID BODY FIT | |||||||||||||||
Output model | PDB-8wo5: |