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Structural Diversity of Bacterial Flagellar Motors: Campylobacter jejuni
by subtomogram averaging, at 64 A resolution
#1: Surface view with section colored by density value, Surface level: 5, Made by UCSF CHIMERA
#2: Surface view colored by cylindrical radius, Surface level: 5, Made by UCSF CHIMERA
 Entry | |
| Summary | |
| Database / ID | EM DATA BANK (EMDB) / 5300 |
|---|---|
| Title | Structural Diversity of Bacterial Flagellar Motors: Campylobacter jejuni |
| Map | Final map is the C16-symmetrized average calculated from 15 individual sub-tomograms of Campylobacter jejuni flagellar motor. |
| Sample | Campylobacter jejuni flagellar motor |
| Keywords |  Campylobacter jejuni flagellar motor |
| Authors | Chen S, Beeby M, Murphy GE, Leadbetter JR, Hendrixson DR, Briegel A, Li Z, Shi J, Tocheva EI, Muller A, Dobro MJ, Jensen GJ |
| Date | Deposition: 2011-06-06, Header release: 2011-09-22, Map release: 2011-09-22, Last update: 2011-09-22 |
| EMDB Sites |  EMDB @PDBe (EU), EMDB @RCSB (USA) |
| Structure Visualization | |
| Movies |  Movie Page#1: Surface view with section colored by density value, Surface level: 5, Made by UCSF CHIMERA #2: Surface view colored by cylindrical radius, Surface level: 5, Made by UCSF CHIMERA |
| Supplemental images | |
| Structure viewers |  Yorodumi,  Launch PeppeR (About PeppeR), Volume viewer (RCSB, PDBe) |
| Related Structure Data | |
| Related Entries |
Cite: data citing same article |
| Similar strucutres (beta) |
 List of similar structure data  about Omokage system |
 Article | |
| Citation - Primary | |
| Article | EMBO J., Vol. 30, Issue 14, Page 2972-81, Year 2011 |
|---|---|
| Title | Structural diversity of bacterial flagellar motors. |
| Authors | Songye Chen, Morgan Beeby, Gavin E Murphy, Jared R Leadbetter, David R Hendrixson, Ariane Briegel, Zhuo Li, Jian Shi, Elitza I Tocheva, Axel Müller, Megan J Dobro, Grant J Jensen Division of Biology, California Institute of Technology, Pasadena, CA, USA. |
| Keywords | Bacteria (chemistry), Cell Movement, Flagella (chemistry), Models, Molecular, Molecular Motor Proteins (chemistry) |
| Links | DOI: 10.1038/emboj.2011.186, PubMed: 21673657, PMC: PMC3160247 |
 Map | |||||||||||||||||||||||||
| File |  EMD-5300.map ( map file in CCP4 format, 866 KB ) | ||||||||||||||||||||||||
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| Projections & Slices | Size of images:
Images are generated by Spider package. | ||||||||||||||||||||||||
| Density |
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| Data Type | Image stored as Reals | ||||||||||||||||||||||||
| Space Group Number | 1 | ||||||||||||||||||||||||
| Map Geometry |
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| Unit Cell | A= B= C: 1140 A Alpha=beta=gamma: 90 degrees | ||||||||||||||||||||||||
| Pixel Spacing | X= Y= Z: 19 A | ||||||||||||||||||||||||
| CCP4 map header info | |||||||||||||||||||||||||
| Annotation Details | Final map is the C16-symmetrized average calculated from 15 individual sub-tomograms of Campylobacter jejuni flagellar motor. | ||||||||||||||||||||||||
 Supplement |
 Sample | |
| Name | Campylobacter jejuni flagellar motor |
|---|---|
| Number of Components | 1 |
| Component #1: cellular-component - flagellar motor | |
| Scientific name | flagellar motor |
| Number of Copies | 1 |
| Scientific Name of Species | Campylobacter jejuni |
| NCBI taxonomy | 197 |
| Strain | ATCC 29428 |
| Recombinant expression | No |
 Experiment | |
| Sample Preparation | |
| Staining | no staining |
|---|---|
| Specimen Support Details | EM R2/2 copper/rhodium Quantifoil |
| Buffer | Details: brain heart infusion broth plus 5% fetal bovine serum |
| Vitrification | |
| Cryogen Name | ETHANE |
| Details | Vitrification instrument: FEI Vitrobot |
| Humidity | 100 |
| Instrument | FEI VITROBOT |
| Temperature | 77 Kelvin |
| Imaging | |
| Microscope | FEI POLARA 300 |
| Date | 13-AUG-2008 |
| Electron Gun | |
| Electron Source | FIELD EMISSION GUN |
| Accelerating Voltage | 300 kV |
| Electron Dose | 200 e/A**2 |
| Illumination Mode | FLOOD BEAM |
| Lens | |
| Magnification | Nominal: 22500 |
| Imaging Mode | BRIGHT FIELD |
| Defocus | 8000 nm - 12000 nm |
| Energy Filter | Energy Filter: GATAN GIF , Energy Window: 0-20 eV |
| Specimen Holder | |
| Holder | FEI Polara |
| Model | GATAN HELIUM |
| Tilt Angle | -60 degrees - 60 degrees |
| Temperature | 82 K |
| Camera | |
| Detector | GATAN UltraCam |
 Processing | |
| Method | subtomogram averaging |
|---|---|
| 3D reconstruction | |
| Algorithm | Backprojection |
| Software | IMOD, Bsoft |
| Details | Final map is the C16-symmetrized average calculated from 15 individual sub-tomograms. |
| Resolution By Author | 64 A |
| Resolution Method | FSC at 0.5 cut-off |
| Subtomogram Averaging | |
| Details | Average number of tilts used in the 3D reconstructions: 120. Average tomographic tilt angle increment: 1. |
| Download | |||
| Data from EMDB | |||
| Header (meta data in XML format) | emd-5300.xml (6.8 KB) | ||
|---|---|---|---|
| Map data | emd_5300.map.gz (562.2 KB) | ||
| FTP directory | ftp://ftp.pdbj.org/pub/emdb/structures/EMD-5300 | ||
| Movie files | |||
| movie #1 |
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| movie #2 |
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