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- PDB-4o99: Crystal structure of Beta-ketothiolase (PhaA) from Ralstonia eutr... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4o99 | ||||||
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Title | Crystal structure of Beta-ketothiolase (PhaA) from Ralstonia eutropha H16 | ||||||
![]() | Acetyl-CoA acetyltransferase | ||||||
![]() | TRANSFERASE / acetoacetyl-coa transferase / PHB biosynthesis / Acyltransferase Transferase | ||||||
Function / homology | ![]() poly-hydroxybutyrate biosynthetic process / acetyl-CoA C-acetyltransferase / acetyl-CoA C-acetyltransferase activity / fatty acid beta-oxidation / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kim, E.J. / Kim, J. / Kim, S. / Kim, K.J. | ||||||
![]() | ![]() Title: Crystal structure and biochemical characterization of PhaA from Ralstonia eutropha, a polyhydroxyalkanoate-producing bacterium. Authors: Kim, E.J. / Kim, K.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 305.1 KB | Display | ![]() |
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PDB format | ![]() | 246 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 462.5 KB | Display | ![]() |
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Full document | ![]() | 475.7 KB | Display | |
Data in XML | ![]() | 63.5 KB | Display | |
Data in CIF | ![]() | 93 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4o9aC ![]() 4o9cC ![]() 1dluS C: citing same article ( S: Starting model for refinement |
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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: 40462.625 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.23 % |
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Crystal grow | Temperature: 295 K / Method: hanging drop / pH: 8.5 Details: 20% PEG MME 2K, Tris-HCl, 0.2M Trimethylamine N-oxide dihydrate, pH 8.5, hanging drop, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC Quantum 270r / Detector: CCD / Date: Jul 3, 2013 / Details: Rh coated Torroidal Mirror |
Radiation | Monochromator: Double Crystal Monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97954 Å / Relative weight: 1 |
Reflection | Resolution: 1.96→30.62 Å / Num. obs: 98053 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1DLU Resolution: 1.96→30.62 Å / Cor.coef. Fo:Fc: 0.945 / Cor.coef. Fo:Fc free: 0.903 / Occupancy max: 1 / Occupancy min: 1 / SU B: 3.507 / SU ML: 0.101 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.185 / ESU R Free: 0.17 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES
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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 max: 94.48 Å2 / Biso mean: 22.6782 Å2 / Biso min: 10.55 Å2
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Refinement step | Cycle: LAST / Resolution: 1.96→30.62 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.964→2.014 Å / Total num. of bins used: 20
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