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- PDB-1ahz: STRUCTURE OF THE OCTAMERIC FLAVOENZYME VANILLYL-ALCOHOL OXIDASE I... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ahz | ||||||
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Title | STRUCTURE OF THE OCTAMERIC FLAVOENZYME VANILLYL-ALCOHOL OXIDASE IN COMPLEX WITH 4-(1-HEPTENYL)PHENOL | ||||||
![]() | VANILLYL-ALCOHOL OXIDASE | ||||||
![]() | FLAVOENZYME / OXIDASE / CATALYSIS | ||||||
Function / homology | ![]() vanillyl-alcohol oxidase / vanillyl-alcohol oxidase activity / methanol metabolic process / : / D-lactate dehydrogenase (cytochrome) activity / lactate catabolic process / D-lactate dehydrogenase activity / FAD binding / peroxisome / mitochondrion Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Mattevi, A. | ||||||
![]() | ![]() Title: Crystal structures and inhibitor binding in the octameric flavoenzyme vanillyl-alcohol oxidase: the shape of the active-site cavity controls substrate specificity. Authors: Mattevi, A. / Fraaije, M.W. / Mozzarelli, A. / Olivi, L. / Coda, A. / van Berkel, W.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 | ![]() | 226.2 KB | Display | ![]() |
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PDB format | ![]() | 182.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 550.5 KB | Display | ![]() |
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Full document | ![]() | 610.3 KB | Display | |
Data in XML | ![]() | 32.6 KB | Display | |
Data in CIF | ![]() | 46.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.30602, -0.95098, 0.04465), Vector: |
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Components
#1: Protein | Mass: 63107.121 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Details: FUNGUS / Source: (natural) ![]() #2: Chemical | #3: Chemical | #4: Chemical | ChemComp-EPT / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 40 % / Description: BINDING STUDIES | |||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 4.6 / Details: FROM 6% PEG4000, 100 MM ACETATE BUFFER PH 4.6 | |||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 300 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 1, 1996 / Details: COLLIMATOR |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3.3→30 Å / Num. obs: 17633 / % possible obs: 90.7 % / Observed criterion σ(I): 0 / Redundancy: 2 % / Biso Wilson estimate: 24 Å2 / Rsym value: 0.111 / Net I/σ(I): 8 |
Reflection shell | Resolution: 3.3→3.4 Å / Redundancy: 2 % / Rmerge(I) obs: 0.339 / Mean I/σ(I) obs: 3 / Rsym value: 0.339 / % possible all: 86.1 |
Reflection | *PLUS Num. measured all: 41329 / Rmerge(I) obs: 0.111 |
Reflection shell | *PLUS % possible obs: 86.1 % |
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Processing
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Refinement | Method to determine structure: DENSITY AVERAGING, LEAST SQUARES REFINEMENT Resolution: 3.3→30 Å / Isotropic thermal model: TNT BCORREL / σ(F): 0 / Stereochemistry target values: TNT PROTGEO
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Solvent computation | Solvent model: BABINET | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.3→30 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Version: 5-E / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.268 / Lowest resolution: 100 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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