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Open data
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Basic information
Entry | Database: PDB / ID: 1qnx | ||||||
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Title | Ves v 5, an allergen from Vespula vulgaris venom | ||||||
![]() | VES V 5 | ||||||
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Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Henriksen, A. / Gajhede, M. / Spangfort, M.D. | ||||||
![]() | ![]() Title: Major Venom Allergen of Yellow Jackets, Ves V 5: Structural Characterization of a Pathogenesis-Related Protein Superfamily. Authors: Henriksen, A. / King, T.P. / Mirza, O. / Monsalve, R.I. / Meno, K. / Ipsen, H. / Larsen, J.N. / Gajhede, M. / Spangfort, M.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 56.4 KB | Display | ![]() |
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PDB format | ![]() | 43.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 23862.076 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-NA / |
#3: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.45 Å3/Da / Density % sol: 49.71 % | ||||||||||||||||||||
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Crystal grow![]() | pH: 5.6 / Details: 18% PEG6000, 0.1M CITRTE BUFFER PH 5.6 | ||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, sitting drop / PH range low: 6 / PH range high: 5 | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Mar 15, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.9→30 Å / Num. obs: 17809 / % possible obs: 93.2 % / Redundancy: 8.1 % / Biso Wilson estimate: 8.3 Å2 / Rsym value: 0.067 |
Reflection shell | Resolution: 1.9→1.97 Å / Rsym value: 0.178 / % possible all: 98.9 |
Reflection | *PLUS Rmerge(I) obs: 0.067 |
Reflection shell | *PLUS % possible obs: 98.9 % / Redundancy: 3.6 % / Rmerge(I) obs: 0.178 / Mean I/σ(I) obs: 6.9 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 36.9 Å2 / ksol: 0.365376 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→2.02 Å / Rfactor Rfree error: 0.023 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: CNS / Version: 0.5 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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