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- PDB-1u53: Novel X-Ray Structure of Na-ASP-2, a PR-1 protein from the nemato... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1u53 | ||||||
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Title | Novel X-Ray Structure of Na-ASP-2, a PR-1 protein from the nematode parasite Necator americanus and a vaccine antigen for human hookworm infection | ||||||
![]() | secreted protein ASP-2![]() | ||||||
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Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Asojo, O.A. / Goud, G. / Dhar, K. / Loukas, A. / Zhan, B. / Deumic, V. / Liu, S. / Borgstahl, G.E.O. / Hotez, P.J. | ||||||
![]() | ![]() Title: X-ray structure of Na-ASP-2, a pathogenesis-related-1 protein from the nematode parasite, Necator americanus, and a vaccine antigen for human hookworm infection. Authors: Asojo, O.A. / Goud, G. / Dhar, K. / Loukas, A. / Zhan, B. / Deumic, V. / Liu, S. / Borgstahl, G.E. / Hotez, P.J. | ||||||
History |
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Remark 999 | SEQUENCE Author states that this is a polymorph, of all the Na-ASPs cloned and sequenced ...SEQUENCE Author states that this is a polymorph, of all the Na-ASPs cloned and sequenced approxiamtely 50% have a Leu in that site while the others have a Met. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 50.4 KB | Display | ![]() |
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PDB format | ![]() | 38.8 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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Unit cell |
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Components
#1: Protein | ![]() Mass: 21214.115 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() |
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#2: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.92 Å3/Da / Density % sol: 35.49 % |
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Crystal grow![]() | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 100mM Imidazole, 40% PEG 400, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction source | Source: ![]() |
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Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Dec 16, 2003 / Details: mirrors |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.56→40 Å / Num. obs: 17644 / % possible obs: 80.9 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 3 / Net I/σ(I): 27.6 |
Reflection shell | Resolution: 1.56→1.62 Å / Redundancy: 1.74 % / Rmerge(I) obs: 0.154 / Mean I/σ(I) obs: 3.5 / % possible all: 10.7 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Solvent model: BABINET MODEL PARAMETERS FOR MASK CACLULATION | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.57 Å2
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Refinement step | Cycle: LAST / Resolution: 1.56→25 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.563→1.604 Å / Total num. of bins used: 20
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