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- PDB-4jza: Crystal structure of a Legionella phosphoinositide phosphatase: i... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4jza | ||||||
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Title | Crystal structure of a Legionella phosphoinositide phosphatase: insights into lipid metabolism in pathogen host interaction | ||||||
![]() | Uncharacterized protein | ||||||
![]() | HYDROLASE / alpha beta fold / phosphatase | ||||||
Function / homology | ![]() Peroxidase; domain 1 - #60 / Four Helix Bundle (Hemerythrin (Met), subunit A) - #1720 / Phosphoinositide phosphatase insertion domain / Phosphoinositide phosphatase, C-terminal / Phosphoinositide phosphatase insertion domain / Phosphoinositide phosphatase C-terminal domain / Peroxidase; domain 1 / Four Helix Bundle (Hemerythrin (Met), subunit A) / Up-down Bundle / Orthogonal Bundle / Mainly Alpha Similarity search - Domain/homology | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Toulabi, L. / Wu, X. / Cheng, Y. / Mao, Y. | ||||||
![]() | ![]() Title: Identification and structural characterization of a legionella phosphoinositide phosphatase. Authors: Toulabi, L. / Wu, X. / Cheng, Y. / Mao, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 637.9 KB | Display | ![]() |
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PDB format | ![]() | 551.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar 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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Noncrystallographic symmetry (NCS) | NCS oper:
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Components
#1: Protein | Mass: 95049.992 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() References: UniProt: D3HMN4, phosphatidylinositol-3-phosphatase #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.7 Å3/Da / Density % sol: 66.75 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 0.1M HEPES (pH 7.0), 0.1M succinic acid, and 6.5% (wt/vol) PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Jan 1, 2012 / Details: mirrors |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.978 Å / Relative weight: 1 |
Reflection | Resolution: 2.58→130.93 Å / Num. all: 167313 / Num. obs: 164803 / % possible obs: 98.5 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Rmerge(I) obs: 0.099 / Net I/σ(I): 10.96 |
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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: 58.829 Å2
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Refinement step | Cycle: LAST / Resolution: 2.584→49.44 Å
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Refine LS restraints |
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