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Open data
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Basic information
Entry | Database: PDB / ID: 7f17 | ||||||
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Title | Crystal Structure of acid phosphatase | ||||||
![]() | Acid phosphatase | ||||||
![]() | HYDROLASE / phosphorylation / hydrolysis | ||||||
Function / homology | Acid phosphatase, class A, bacterial / Acid phosphatase homologues / Phosphatidic acid phosphatase type 2/haloperoxidase / PAP2 superfamily / Phosphatidic acid phosphatase type 2/haloperoxidase superfamily / acid phosphatase / acid phosphatase activity / outer membrane-bounded periplasmic space / Acid phosphatase![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Xu, X. / Hou, X.D. / Song, W. / Rao, Y.J. / Liu, L.M. / Wu, J. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Local Electric Field Modulated Reactivity of Pseudomonas aeruginosa Acid Phosphatase for Enhancing Phosphorylation of l-Ascorbic Acid Authors: Xu, X. / Yan, S. / Hou, X. / Song, W. / Wang, L. / Wu, T. / Qi, M. / Wu, J. / Rao, Y. / Wang, B. / Liu, L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 128.6 KB | Display | ![]() |
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PDB format | ![]() | 105.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444.1 KB | Display | ![]() |
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Full document | ![]() | 452.3 KB | Display | |
Data in XML | ![]() | 23.5 KB | Display | |
Data in CIF | ![]() | 32.4 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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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 23737.412 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: phoC, C0044_01345, CAZ10_16160, DT376_10070, DZ962_30070, IPC116_25940, IPC1295_25655, IPC1323_25265, IPC1481_23795, IPC1505_26850, IPC1509_05755, IPC36_01875, IPC582_09790, IPC620_15205, ...Gene: phoC, C0044_01345, CAZ10_16160, DT376_10070, DZ962_30070, IPC116_25940, IPC1295_25655, IPC1323_25265, IPC1481_23795, IPC1505_26850, IPC1509_05755, IPC36_01875, IPC582_09790, IPC620_15205, IPC669_21580, NCTC13621_04764, RW109_RW109_00792 Production host: ![]() ![]() #2: 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: 2.75 Å3/Da / Density % sol: 55.22 % |
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Crystal grow | Temperature: 288.5 K / Method: vapor diffusion, sitting drop Details: 0.1M BIS-TRIS pH 6.5, 50% v/v Polypropylene glycol P 40 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Nov 15, 2020 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.8→50 Å / Num. obs: 19676 / % possible obs: 99.9 % / Redundancy: 12.6 % / Rmerge(I) obs: 0.103 / Rpim(I) all: 0.03 / Rrim(I) all: 0.107 / Χ2: 0.923 / Net I/σ(I): 7.2 / Num. measured all: 248848 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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Processing
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Refinement | Method to determine structure: ![]() Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY
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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 max: 134.27 Å2 / Biso mean: 41.782 Å2 / Biso min: 19.6 Å2
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Refinement step | Cycle: final / Resolution: 2.8→49.37 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.868 Å / Rfactor Rfree error: 0
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