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Open data
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Basic information
Entry | Database: PDB / ID: 5uco | ||||||
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Title | Benzophenone synthase from Hypericum androsaemum | ||||||
![]() | 2,4,6-trihydroxybenzophenone synthase | ||||||
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Function / homology | ![]() 2,3',4,6-tetrahydroxybenzophenone synthase / 2,4,6-trihydroxybenzophenone synthase / tetrahydroxybenzophenone synthase activity / trihydroxybenzophenone synthase activity / benzoyl-CoA metabolic process / malonyl-CoA metabolic process / biosynthetic process / ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Stewart Jr, C.E. / Noel, J.P. | ||||||
![]() | ![]() Title: Molecular architectures of benzoic acid-specific type III polyketide synthases. Authors: Stewart, C. / Woods, K. / Macias, G. / Allan, A.C. / Hellens, R.P. / Noel, J.P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 271.4 KB | Display | ![]() |
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PDB format | ![]() | 220.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5uc5C ![]() 5w8qC ![]() 5wc4C ![]() 1bi5S 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: 43017.988 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: codon optimized for E.coli expression, His-tag removed after purification Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: Q8SAS8, 2,3',4,6-tetrahydroxybenzophenone synthase #2: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.72 Å3/Da / Density % sol: 54.79 % |
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Crystal grow![]() | Temperature: 278 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: Reservoir: PIPES (pH 6.5) 100mM, PEG8000 18%; ratio of protein to reservoir = 1:1 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Apr 5, 2013 / Details: mirrors | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Monochromator: double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Scattering type: x-ray | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.85→184.97 Å / Num. all: 18840 / Num. obs: 18840 / % possible obs: 85 % / Redundancy: 3.5 % / Biso Wilson estimate: 21.7 Å2 / Rpim(I) all: 0.142 / Rrim(I) all: 0.294 / Rsym value: 0.253 / Net I/av σ(I): 2.2 / Net I/σ(I): 4.5 / Num. measured all: 65535 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Phasing
Phasing![]() | Method: ![]() |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1BI5 Resolution: 2.85→46.242 Å / SU ML: 0.37 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 24.09
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 55.38 Å2 / Biso mean: 15.6359 Å2 / Biso min: 2.58 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.85→46.242 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 13
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