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- PDB-8sm9: Air-oxidized C. fi TruffO expressed from M9 minimal medium supple... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8sm9 | ||||||
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Title | Air-oxidized C. fi TruffO expressed from M9 minimal medium supplemented with Fe | ||||||
![]() | Amidohydrolase 2 | ||||||
![]() | OXIDOREDUCTASE / oxygenase / amidohydrolase-like / PF04909 | ||||||
Function / homology | 2-amino-3-carboxymuconate-6-semialdehyde decarboxylase / Amidohydrolase / carboxy-lyase activity / Amidohydrolase-related / Metal-dependent hydrolase / hydrolase activity / : / Amidohydrolase 2![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Liu, C. / Rittle, J. | ||||||
Funding support | 1items
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![]() | ![]() Title: Bioinformatic Discovery of a Cambialistic Monooxygenase. Authors: Liu, C. / Powell, M.M. / Rao, G. / Britt, R.D. / Rittle, 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 | ![]() | 316 KB | Display | ![]() |
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PDB format | ![]() | 233.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 3.7 MB | Display | ![]() |
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Full document | ![]() | 3.7 MB | Display | |
Data in XML | ![]() | 50 KB | Display | |
Data in CIF | ![]() | 70 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8sm6C ![]() 8sm7C ![]() 8sm8C ![]() 8smaC C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 41796.406 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-FE / #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.95 Å3/Da / Density % sol: 58.26 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 5 Details: 0.07M Ammonium acetate, 5.6% PEG 4000, 20% glycerol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Feb 23, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.74 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→60.04 Å / Num. obs: 82002 / % possible obs: 93.98 % / Redundancy: 6.1 % / Biso Wilson estimate: 46.54 Å2 / CC1/2: 0.958 / Net I/σ(I): 3.28 |
Reflection shell | Resolution: 2.3→2.382 Å / Num. unique obs: 7943 / CC1/2: 0.497 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 52.29 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→60.04 Å
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Refine LS restraints |
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LS refinement shell |
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