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Yorodumi- PDB-1e0y: Structure of the D170S/T457E double mutant of vanillyl-alcohol oxidase -
+Open data
-Basic information
Entry | Database: PDB / ID: 1e0y | ||||||
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Title | Structure of the D170S/T457E double mutant of vanillyl-alcohol oxidase | ||||||
Components | VANILLYL-ALCOHOL OXIDASE | ||||||
Keywords | FLAVOENZYME / SPECIFICITY | ||||||
Function / homology | Function and homology information vanillyl-alcohol oxidase / vanillyl-alcohol oxidase activity / methanol metabolic process / FAD binding / peroxisome Similarity search - Function | ||||||
Biological species | PENICILLIUM SIMPLICISSIMUM (fungus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.75 Å | ||||||
Authors | Van Der heuvel, R.H.H. / Van Berkel, W.J.H. / Mattevi, A. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2000 Title: Inversion of Stereospecificity in Vanillyl-Alcohol Oxidase Authors: Van Der Heuvel, R.H.H. / Fraaije, M.W. / Espinosa, M.F. / Mattevi, A. / Van Berkel, W.J.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1e0y.cif.gz | 225 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1e0y.ent.gz | 178.7 KB | Display | PDB format |
PDBx/mmJSON format | 1e0y.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/e0/1e0y ftp://data.pdbj.org/pub/pdb/validation_reports/e0/1e0y | HTTPS FTP |
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-Related structure data
Related structure data | 1vaoS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 63006.980 Da / Num. of mol.: 2 / Mutation: YES Source method: isolated from a genetically manipulated source Details: COVALENT LINK BETWEEN FLAVIN AND HIS422 / Source: (gene. exp.) PENICILLIUM SIMPLICISSIMUM (fungus) / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): TG2 / References: UniProt: P56216, vanillyl-alcohol oxidase #2: Chemical | #3: Chemical | ChemComp-FCR / | #4: Water | ChemComp-HOH / | Compound details | CHAIN A, B ENGINEERED | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46.45 % | |||||||||||||||||||||||||
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Crystal grow | pH: 4.6 / Details: pH 4.60 | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 1 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 15, 1999 / Details: MIRRORS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.75→20 Å / Num. obs: 28714 / % possible obs: 97.3 % / Redundancy: 2.4 % / Rmerge(I) obs: 0.11 / Rsym value: 0.11 / Net I/σ(I): 6.4 |
Reflection shell | Resolution: 2.75→2.9 Å / Redundancy: 2.2 % / Rmerge(I) obs: 0.307 / Mean I/σ(I) obs: 2.7 / Rsym value: 0.307 / % possible all: 95 |
Reflection | *PLUS Num. measured all: 69063 |
Reflection shell | *PLUS % possible obs: 95 % / Rmerge(I) obs: 0.371 / Mean I/σ(I) obs: 2.1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1VAO Resolution: 2.75→20 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 2.75→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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