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- PDB-6fw7: Crystal structure of L-tryptophan oxidase VioA from Chromobacteri... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6fw7 | ||||||
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Title | Crystal structure of L-tryptophan oxidase VioA from Chromobacterium violaceum in complex with 4-Fluoro-L-Tryptophan | ||||||
![]() | Flavin-dependent L-tryptophan oxidase VioA | ||||||
![]() | BIOSYNTHETIC PROTEIN / Violacein biosynthesis / L-tryptophan oxidase | ||||||
Function / homology | ![]() 7-chloro-L-tryptophan oxidase / antibiotic biosynthetic process / oxidoreductase activity / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lai, H.E. / Morgan, M. / Moore, S. / Freemont, P. | ||||||
Funding support | ![]()
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![]() | ![]() Title: A GenoChemetic strategy for derivatization of the violacein natural product scaffold Authors: Lai, H.E. / Obled, A.M.C. / Chee, S.M. / Morgan, R.M. / Sharma, S.V. / Moore, S.J. / Polizzi, K.M. / Goss, R.J.M. / Freemont, P.S. #1: ![]() Title: A semi-synthetic strategy for derivatization of the violacein natural product scaffold Authors: Lai, H.E. / Chee, S.M. / Morgan, M. / Moore, S.J. / Polizzi, K.M. / Freemont, P.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 177.1 KB | Display | ![]() |
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PDB format | ![]() | 138.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 947.2 KB | Display | ![]() |
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Full document | ![]() | 973.4 KB | Display | |
Data in XML | ![]() | 34.5 KB | Display | |
Data in CIF | ![]() | 45.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6fw8C ![]() 6fw9C ![]() 6fwaC ![]() 6esdS S: Starting model for refinement C: citing same article ( |
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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: 46680.980 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Chromobacterium violaceum ATCC 12472 / Gene: vioA, CV_3274 / Production host: ![]() ![]() #2: Chemical | #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.34 Å3/Da / Density % sol: 63.15 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: 100 mM HEPES pH 7.5, 9% PEG 8000 and 9% ethylene glycol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Dec 16, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 3→59.04 Å / Num. obs: 25435 / % possible obs: 100 % / Redundancy: 6.5 % / CC1/2: 0.848 / Rmerge(I) obs: 0.2695 / Rrim(I) all: 0.2939 / Net I/σ(I): 5.47 |
Reflection shell | Resolution: 3→3.12 Å / Redundancy: 6.7 % / Num. unique obs: 2508 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6ESD Resolution: 3→59.035 Å / SU ML: 0.4 / Cross valid method: FREE R-VALUE / σ(F): 1.4 / Phase error: 29.37 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3→59.035 Å
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Refine LS restraints |
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LS refinement shell |
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