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Open data
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Basic information
Entry | Database: PDB / ID: 4z9q | ||||||
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Title | Crystal structure of OXA-58 with disordered active site | ||||||
![]() | Beta-lactamase OXA-58 | ||||||
![]() | HYDROLASE / OXA-58 / Beta lactamase / Disordered / BALBES NMR | ||||||
Function / homology | ![]() penicillin binding / antibiotic catabolic process / beta-lactamase activity / beta-lactamase / response to antibiotic Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Pratap, S. / Gill, P.K. / Golemi-Kotra, D. / Kumar, P. | ||||||
![]() | ![]() Title: Crystal structure of OXA-58 with disordered active site Authors: Pratap, S. / Gill, P.K. / Golemi-Kotra, D. / Kumar, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 100.2 KB | Display | ![]() |
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PDB format | ![]() | 80.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 434.2 KB | Display | ![]() |
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Full document | ![]() | 434.3 KB | Display | |
Data in XML | ![]() | 10.8 KB | Display | |
Data in CIF | ![]() | 14.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 31498.209 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: ACICU / Plasmid: pET29a / Production host: ![]() ![]() References: UniProt: B2I3T3, UniProt: A0A182DW26*PLUS, beta-lactamase |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.7008 Å3/Da / Density % sol: 27.6791 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 30% PEG 1500 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Oct 22, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54179 Å / Relative weight: 1 |
Reflection | Resolution: 2.23→37.38 Å / Num. obs: 10289 / % possible obs: 98.28 % / Redundancy: 2 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 16.39 |
Reflection shell | Resolution: 2.235→2.314 Å / Redundancy: 1.9 % / Rmerge(I) obs: 0.15 / Mean I/σ(I) obs: 5.84 / % possible all: 93.1 |
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Processing
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Refinement | Resolution: 2.23→37.38 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.895 / SU B: 16.609 / SU ML: 0.197 / Cross valid method: THROUGHOUT / ESU R: 0.387 / ESU R Free: 0.251 / 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 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 34.573 Å2
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Refinement step | Cycle: 1 / Resolution: 2.23→37.38 Å
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