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Open data
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Basic information
Entry | Database: PDB / ID: 7rty | ||||||
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Title | Crystal Structure of PsfC from Pseudomonas syringae PB-5123 | ||||||
![]() | PsfC | ||||||
![]() | BIOSYNTHETIC PROTEIN / Fosfomycin biosynthesis / metalloenzyme / Fe | ||||||
Function / homology | Polymerase/histidinol phosphatase-like / catalytic activity / : / Uncharacterized protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ongpipattanakul, C. / Nair, S.K. | ||||||
Funding support | 1items
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![]() | ![]() Title: Biosynthesis of fosfomycin in pseudomonads reveals an unexpected enzymatic activity in the metallohydrolase superfamily. Authors: Simon, M.A. / Ongpipattanakul, C. / Nair, S.K. / van der Donk, W.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 | ![]() | 109.5 KB | Display | ![]() |
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PDB format | ![]() | 83.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 795.6 KB | Display | ![]() |
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Full document | ![]() | 799.7 KB | Display | |
Data in XML | ![]() | 19.8 KB | Display | |
Data in CIF | ![]() | 27.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 27058.795 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-FE2 / #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.19 Å3/Da / Density % sol: 43.72 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.17-0.20 M sodium fluoride, 18-20% PEG 3,350, 0.1 M bis-tris propane pH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Aug 8, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.12713 Å / Relative weight: 1 |
Reflection | Resolution: 1.96→65.548 Å / Num. obs: 30430 / % possible obs: 91.2 % / Redundancy: 7.8 % / CC1/2: 0.997 / Rmerge(I) obs: 0.09 / Rrim(I) all: 0.096 / Net I/σ(I): 15.6 |
Reflection shell | Resolution: 1.963→1.97 Å / Redundancy: 6 % / Rmerge(I) obs: 0.919 / Mean I/σ(I) obs: 2.3 / Num. unique obs: 233 / CC1/2: 0.752 / % possible all: 68.9 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: 43.328 Å2
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Refinement step | Cycle: 1 / Resolution: 1.963→25 Å
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Refine LS restraints |
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