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Open data
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Basic information
Entry | Database: PDB / ID: 1aok | ||||||
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Title | VIPOXIN COMPLEX | ||||||
![]() | (VIPOXIN COMPLEX) x 2 | ||||||
![]() | HYDROLASE / PHOSPHOLIPASE / VIPOXIN / PLA2-ACTIVITY / SNAKE-VENOM | ||||||
Function / homology | ![]() calcium-dependent phospholipase A2 activity / phospholipase A2 / arachidonate secretion / phospholipid metabolic process / lipid catabolic process / negative regulation of T cell proliferation / phospholipid binding / toxin activity / killing of cells of another organism / calcium ion binding / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Perbandt, M. / Wilson, J.C. / Eschenburg, S. / Betzel, C. | ||||||
![]() | ![]() Title: Crystal structure of vipoxin at 2.0 A: an example of regulation of a toxic function generated by molecular evolution. Authors: Perbandt, M. / Wilson, J.C. / Eschenburg, S. / Mancheva, I. / Aleksiev, B. / Genov, N. / Willingmann, P. / Weber, W. / Singh, T.P. / Betzel, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 61.7 KB | Display | ![]() |
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PDB format | ![]() | 48.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1pp2S S: Starting model for refinement |
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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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Unit cell |
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Components
#1: Protein | Mass: 13661.036 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() |
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#2: Protein | Mass: 13835.843 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() |
#3: Chemical | ChemComp-ACT / |
#4: Water | ChemComp-HOH / |
Compound details | IN VIPOXIN ONE SUBUNIT IS ROTATED BY ABOUT 180 DEGREE TO GIVE A PSEUDO MIRROR SYMMETRY AND THE ...IN VIPOXIN ONE SUBUNIT IS ROTATED BY ABOUT 180 DEGREE TO GIVE A PSEUDO MIRROR SYMMETRY AND THE COMPLEX IS STABILIZED |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2 Å3/Da / Density % sol: 36.88 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 4.8 / Details: pH 4.8 | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||
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: Sep 15, 1995 / Details: COLLIMATOR |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2→20 Å / Num. obs: 15070 / % possible obs: 100 % / Observed criterion σ(I): 2 / Rsym value: 0.086 |
Reflection shell | Resolution: 2→2.03 Å / Rsym value: 0.274 / % possible all: 100 |
Reflection | *PLUS Rmerge(I) obs: 0.086 |
Reflection shell | *PLUS % possible obs: 100 % / Rmerge(I) obs: 0.274 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1PP2 Resolution: 2→20 Å /
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Refinement step | Cycle: LAST / Resolution: 2→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.16 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |