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- PDB-7f18: Crystal Structure of a mutant of acid phosphatase from Pseudomona... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7f18 | ||||||
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Title | Crystal Structure of a mutant of acid phosphatase from Pseudomonas aeruginosa (Q57H/W58P/D135R) | ||||||
![]() | 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. / Yin, D.J. / Rao, Y.J. / Liu, L.M. | ||||||
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 | ![]() | 129.7 KB | Display | ![]() |
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PDB format | ![]() | 102.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444.6 KB | Display | ![]() |
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Full document | ![]() | 457.1 KB | Display | |
Data in XML | ![]() | 23.6 KB | Display | |
Data in CIF | ![]() | 31.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7f17SC 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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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 23559.756 Da / Num. of mol.: 3 / Mutation: Q57H/W58P/D135R 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: ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.81 Å3/Da / Density % sol: 56.17 % |
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Crystal grow | Temperature: 288.15 K / Method: vapor diffusion, sitting drop Details: 0.1M BIS-TRIS pH 6.5, 50% v/v Polypropylene glycol P 400 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SEALED TUBE / Type: BRUKER D8 QUEST / Wavelength: 1.542 Å |
Detector | Type: Bruker PHOTON II / Detector: PIXEL / Date: Mar 2, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.542 Å / Relative weight: 1 |
Reflection | Resolution: 3.189→23.63 Å / Num. obs: 13485 / % possible obs: 99.07 % / Redundancy: 4.92 % / Rsym value: 0.126 / Net I/av σ(I): 30.468 / Net I/σ(I): 9.9 |
Reflection shell | Resolution: 3.26→3.52 Å / Num. unique obs: 855 / Rsym value: 0.394 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 7F17 Resolution: 3.3→23.63 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.892 / SU B: 28.836 / SU ML: 0.437 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.6 / Stereochemistry target values: MAXIMUM LIKELIHOOD 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: 189.91 Å2 / Biso mean: 76.538 Å2 / Biso min: 44.73 Å2
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Refinement step | Cycle: final / Resolution: 3.3→23.63 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.3→3.386 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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