+Open data
-Basic information
Entry | Database: PDB / ID: 4nx9 | ||||||
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Title | Crystal structure of Pseudomonas aeruginosa flagellin FliC | ||||||
Components | Flagellin | ||||||
Keywords | STRUCTURAL PROTEIN / flagellar filament / flagellum / Innate imunity / adaptive immunity / TLR5 | ||||||
Function / homology | Function and homology information bacterial-type flagellum filament / bacterial-type flagellum-dependent cell motility / structural molecule activity / extracellular region Similarity search - Function | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.1 Å | ||||||
Authors | Song, W.S. / Yoon, S.I. | ||||||
Citation | Journal: Biochem.Biophys.Res.Commun. / Year: 2014 Title: Crystal structure of FliC flagellin from Pseudomonas aeruginosa and its implication in TLR5 binding and formation of the flagellar filament Authors: Song, W.S. / Yoon, S.I. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4nx9.cif.gz | 60.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4nx9.ent.gz | 47.7 KB | Display | PDB format |
PDBx/mmJSON format | 4nx9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nx/4nx9 ftp://data.pdbj.org/pub/pdb/validation_reports/nx/4nx9 | 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: 29602.770 Da / Num. of mol.: 1 / Fragment: UNP residues 56-342 / Mutation: G196D Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Strain: ATCC 15222 / Gene: fliC / Plasmid: A modified pET49b / Production host: Escherichia coli (E. coli) / Strain (production host): B834 (DE3) / References: UniProt: O86266 |
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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: 2.01 Å3/Da / Density % sol: 38.69 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 9 Details: 22%(w/v) PEG6000, 0.1M bicine, 8% 2,2,2-trifluoro-ethanol, pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: PAL/PLS / Beamline: 7A (6B, 6C1) / Wavelength: 0.9794 Å |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Nov 3, 2013 |
Radiation | Monochromator: NA / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9794 Å / Relative weight: 1 |
Reflection | Resolution: 2.05→30 Å / Num. all: 14698 / Num. obs: 14698 / % possible obs: 100 % / Redundancy: 7.3 % / Rmerge(I) obs: 0.127 / Net I/σ(I): 20.8 |
Reflection shell | Resolution: 2.05→2.12 Å / Redundancy: 7.1 % / Rmerge(I) obs: 0.427 / Mean I/σ(I) obs: 5 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.1→30 Å / Cor.coef. Fo:Fc: 0.952 / Cor.coef. Fo:Fc free: 0.933 / SU B: 4.402 / SU ML: 0.119 / Cross valid method: THROUGHOUT / ESU R: 0.237 / ESU R Free: 0.177 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 17.5 Å2
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Refinement step | Cycle: LAST / Resolution: 2.1→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.154 Å / Total num. of bins used: 20
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