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Open data
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Basic information
Entry | Database: PDB / ID: 8bmu | ||||||
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Title | Engineered Fructosyl Peptide Oxidase - X04 mutant | ||||||
![]() | Fructosyl Peptide Oxidase mutant (X04) | ||||||
![]() | OXIDOREDUCTASE / FAD / Deglycating enzyme / Amadori product / Fructosyl Peptide Oxidase | ||||||
Function / homology | FLAVIN-ADENINE DINUCLEOTIDE![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Estiri, H. / Bhattacharya, S. / Rodriguez-Buitrago, J.A. / Parisini, E. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Tailoring FPOX enzymes for enhanced stability and expanded substrate recognition. Authors: Estiri, H. / Bhattacharya, S. / Buitrago, J.A.R. / Castagna, R. / Legzdina, L. / Casucci, G. / Ricci, A. / Parisini, E. / Gautieri, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 114.4 KB | Display | ![]() |
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PDB format | ![]() | 83.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 736.3 KB | Display | ![]() |
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Full document | ![]() | 741.1 KB | Display | |
Data in XML | ![]() | 22.8 KB | Display | |
Data in CIF | ![]() | 34.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8bjyC ![]() 8blxC ![]() 8blzC ![]() 6y4jS S: Starting model for refinement 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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Unit cell |
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Components
#1: Protein | Mass: 47379.637 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||||
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#2: Chemical | ChemComp-FAD / | ||||||
#3: Chemical | ChemComp-GOL / #4: Chemical | #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.78 Å3/Da / Density % sol: 55.68 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 / Details: PEG 20000 16-26%, MES 0.1M pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Apr 8, 2022 |
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→74.393 Å / Num. obs: 62950 / % possible obs: 94.7 % / Redundancy: 16.1 % / CC1/2: 0.999 / Net I/σ(I): 20.5 |
Reflection shell | Resolution: 1.6→1.673 Å / Mean I/σ(I) obs: 1.1 / Num. unique obs: 2416 / CC1/2: 0.458 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6Y4J Resolution: 1.6→45.82 Å / Cor.coef. Fo:Fc: 0.964 / Cor.coef. Fo:Fc free: 0.95 / SU B: 1.754 / SU ML: 0.058 / Cross valid method: THROUGHOUT / ESU R: 0.087 / ESU R Free: 0.087 / 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: 18.791 Å2
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Refinement step | Cycle: 1 / Resolution: 1.6→45.82 Å
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Refine LS restraints |
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