+Open data
-Basic information
Entry | Database: PDB / ID: 4wz5 | ||||||
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Title | Crystal structure of P. aeruginosa OXA10 | ||||||
Components | (Beta-lactamase OXA- ...) x 2 | ||||||
Keywords | hydrolase/hydrolase inhibitor / beta lactamase / inhibtor / hydrolase-hydrolase inhibitor complex | ||||||
Function / homology | Function and homology information penicillin binding / antibiotic catabolic process / beta-lactamase activity / beta-lactamase / response to antibiotic Similarity search - Function | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.6 Å | ||||||
Authors | Ferguson, A.D. | ||||||
Citation | Journal: Acs Infect Dis. / Year: 2015 Title: 4,5-Disubstituted 6-Aryloxy-1,3-dihydrobenzo[c][1,2]oxaboroles Are Broad-Spectrum Serine beta-Lactamase Inhibitors. Authors: McKinney, D.C. / Zhou, F. / Eyermann, C.J. / Ferguson, A.D. / Prince, D.B. / Breen, J. / Giacobbe, R.A. / Lahiri, S. / Verheijen, J.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4wz5.cif.gz | 396.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4wz5.ent.gz | 336.1 KB | Display | PDB format |
PDBx/mmJSON format | 4wz5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wz/4wz5 ftp://data.pdbj.org/pub/pdb/validation_reports/wz/4wz5 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
-Beta-lactamase OXA- ... , 2 types, 4 molecules ABCD
#1: Protein | Mass: 27755.541 Da / Num. of mol.: 2 / Mutation: K53KCX Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Gene: bla, oxa10, pse2 / Production host: Escherichia coli (E. coli) / References: UniProt: P14489, beta-lactamase #2: Protein | Mass: 27712.539 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Gene: bla, oxa10, pse2 / Production host: Escherichia coli (E. coli) / References: UniProt: P14489, beta-lactamase |
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-Non-polymers , 4 types, 520 molecules
#3: Chemical | ChemComp-SO4 / #4: Chemical | #5: Chemical | #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.61 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / Details: PEG |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 17-ID / Wavelength: 1 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 14, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→47 Å / Num. obs: 139523 / % possible obs: 97.1 % / Redundancy: 3.5 % / Biso Wilson estimate: 20.78 Å2 / Rmerge(I) obs: 0.049 / Net I/σ(I): 15.1 |
Reflection shell | Resolution: 1.6→1.68 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.481 / Mean I/σ(I) obs: 2.3 / % possible all: 93.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.6→23.43 Å / Cor.coef. Fo:Fc: 0.9539 / Cor.coef. Fo:Fc free: 0.9431 / SU R Cruickshank DPI: 0.086 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.086 / SU Rfree Blow DPI: 0.082 / SU Rfree Cruickshank DPI: 0.082
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Displacement parameters | Biso mean: 24.87 Å2
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Refine analyze | Luzzati coordinate error obs: 0.246 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 1.6→23.43 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.6→1.64 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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