+Open data
-Basic information
Entry | Database: PDB / ID: 5xef | |||||||||
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Title | Crystal structure of flagellar chaperone from bacteria | |||||||||
Components | Flagellar protein fliS | |||||||||
Keywords | CHAPERONE / flagellar chaperone / bacteria | |||||||||
Function / homology | Flagellar protein FliS / Flagellar protein FliS superfamily / Flagellar protein FliS / bacterial-type flagellum assembly / bacterial-type flagellum-dependent cell motility / cytosol / Flagellar protein fliS Function and homology information | |||||||||
Biological species | Bacillus cereus (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2 Å | |||||||||
Authors | Lee, C. / Hong, M. | |||||||||
Funding support | Korea, Republic Of, 2items
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Citation | Journal: Biochem. Biophys. Res. Commun. / Year: 2017 Title: Crystal structure of the flagellar chaperone FliS from Bacillus cereus and an invariant proline critical for FliS dimerization and flagellin recognition Authors: Lee, C. / Kim, M.I. / Park, J. / Jeon, B.Y. / Yoon, S.I. / Hong, M. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5xef.cif.gz | 37.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5xef.ent.gz | 28.3 KB | Display | PDB format |
PDBx/mmJSON format | 5xef.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xe/5xef ftp://data.pdbj.org/pub/pdb/validation_reports/xe/5xef | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 14894.370 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus cereus (bacteria) Strain: ATCC 14579 / DSM 31 / JCM 2152 / NBRC 15305 / NCIMB 9373 / NRRL B-3711 Gene: BC_1639 / Production host: Escherichia coli (E. coli) / References: UniProt: Q81FF1 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.21 Å3/Da / Density % sol: 61.62 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / Details: 1.5 M ammonium sulfate 4 % isopropanol |
-Data collection
Diffraction | Mean temperature: 80 K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: PAL/PLS / Beamline: 7A (6B, 6C1) / Wavelength: 0.97973 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 1 / Detector: AREA DETECTOR / Date: Feb 24, 2016 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.97973 Å / Relative weight: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2→72.06 Å / Num. obs: 18292 / % possible obs: 100 % / Redundancy: 18.4 % / Rmerge(I) obs: 0.093 / Rpim(I) all: 0.023 / Rrim(I) all: 0.095 / Χ2: 2.769 / Net I/σ(I): 10.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2→72.06 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.925 / SU B: 3.116 / SU ML: 0.089 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.151 / ESU R Free: 0.141
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | |||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 73.37 Å2 / Biso mean: 26.035 Å2 / Biso min: 13.06 Å2
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Refinement step | Cycle: final / Resolution: 2→72.06 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.052 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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Refinement TLS params. | L11: 0 °2 / L12: 0 °2 / L13: 0 °2 / L22: 0 °2 / L23: 0 °2 / L33: 0 °2 / S11: 0 Å ° / S12: 0 Å ° / S13: 0 Å ° / S21: 0 Å ° / S22: 0 Å ° / S23: 0 Å ° / S31: 0 Å ° / S32: 0 Å ° / S33: -0 Å ° / T11: 0 Å2 / T12: 0 Å2 / T13: 0 Å2 / T22: 0 Å2 / T23: 0 Å2 / T33: 0 Å2 / Method: refined / Origin x: 0 Å / Origin y: 0 Å / Origin z: 0 Å / Refine-ID: X-RAY DIFFRACTION
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