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Open data
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Basic information
Entry | Database: PDB / ID: 1z5g | ||||||
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Title | Crystal structure of Salmonella typhimurium AphA protein | ||||||
![]() | AphA protein![]() | ||||||
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Function / homology | ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Makde, R.D. / Kumar, V. | ||||||
![]() | ![]() Title: Structural and mutational analyses reveal the functional role of active-site Lys-154 and Asp-173 of Salmonella typhimurium AphA protein. Authors: Makde, R.D. / Gupta, G.D. / Mahajan, S.K. / Kumar, V. #1: Journal: ACTA CRYSTALLOGR.,SECT.D / Year: 2003 Title: Expression, purification, crystallization and preliminary X-ray diffraction studies of recombinant class B non-specific acid phosphatase of Salmonella typhimurium Authors: Makde, R.D. / Kumar, V. / Gupta, G.D. / Jasti, J. / Singh, T.P. / Mahajan, S.K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 185.1 KB | Display | ![]() |
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PDB format | ![]() | 147 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1z88C ![]() 2autC ![]() 1n8nS 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: 23870.703 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: Q5MB24, UniProt: Q540U1*PLUS, ![]() #2: Chemical | ChemComp-MG / #3: Chemical | ChemComp-PO4 / | ![]() #4: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 50 % |
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Crystal grow![]() | Temperature: 283 K / Method: vapor diffusion, sitting drop / pH: 4.7 Details: PEG 6000, magnesium chloride, sodium acetate, glycerol, pH 4.7, VAPOR DIFFUSION, SITTING DROP, temperature 283K |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Mar 17, 2004 / Details: OSMIC Mirrors |
Radiation | Monochromator: Ni Mirror + Ni Filter / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2→20 Å / Num. all: 56804 / Num. obs: 56804 / % possible obs: 92.7 % / Observed criterion σ(I): 0 / Redundancy: 2.93 % / Biso Wilson estimate: 24.4 Å2 / Rmerge(I) obs: 0.056 / Net I/σ(I): 15.2 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.234 / Mean I/σ(I) obs: 4.03 / Num. unique all: 5311 / % possible all: 88.2 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB entry 1N8N Resolution: 2→20 Å / Isotropic thermal model: ISOTROPIC / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: Flat model / Bsol: 48.2 Å2 / ksol: 0.343 e/Å3 | |||||||||||||||||||||||||||
Displacement parameters | Biso mean: 28.4 Å2 | |||||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.07 Å
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Xplor file |
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