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Open data
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Basic information
Entry | Database: PDB / ID: 1hi2 | ||||||
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Title | Eosinophil-derived Neurotoxin (EDN) - Sulphate Complex | ||||||
![]() | EOSINOPHIL-DERIVED NEUROTOXIN | ||||||
![]() | HYDROLASE / RNASE-2 / RNASE US / RIBONUCLEASE | ||||||
Function / homology | ![]() RNA catabolic process / pancreatic ribonuclease / ribonuclease A activity / RNA nuclease activity / innate immune response in mucosa / chemotaxis / azurophil granule lumen / defense response to virus / nucleic acid binding / lyase activity ...RNA catabolic process / pancreatic ribonuclease / ribonuclease A activity / RNA nuclease activity / innate immune response in mucosa / chemotaxis / azurophil granule lumen / defense response to virus / nucleic acid binding / lyase activity / Neutrophil degranulation / extracellular space / extracellular exosome / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Leonidas, D.D. / Boix, E. / Prill, R. / Suzuki, M. / Turton, R. / Minson, K. / Swaminathan, G.J. / Youle, R.J. / Acharya, K.R. | ||||||
![]() | ![]() Title: Mapping the Ribonucleolytic Active Site of Eosinophil-Derived Neurotoxin (Edn): High Resolution Crystal Structures of Edn Complexes with Adenylic Nucleotide Inhibitors Authors: Leonidas, D.D. / Boix, E. / Prill, R. / Suzuki, M. / Turton, R. / Minson, K. / Swaminathan, G.J. / Youle, R.J. / Acharya, K.R. #1: Journal: J.Mol.Biol. / Year: 1996 Title: X-Ray Crystallographic Structure of Recombinant Eosinophil-Derived Neurotoxin at 1.83 A Resolution Authors: Mosimann, S.C. / Newton, D.L. / Youle, R.J. / James, M.N. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 37.9 KB | Display | ![]() |
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PDB format | ![]() | 29.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related 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: 15611.750 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.34 Å3/Da / Density % sol: 44 % | ||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 6.5 Details: 1.5M AMMONIUM SULFATE, 0.1M SODIUM CACODYLATE PH 6.5, 5% ETHANOL | ||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 16 ℃ / Method: vapor diffusion, hanging 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: Nov 15, 1998 / Details: MIRRORS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→40 Å / Num. obs: 17303 / % possible obs: 96.6 % / Observed criterion σ(I): 2 / Redundancy: 8.3 % / Biso Wilson estimate: 11.1 Å2 / Rsym value: 0.065 / Net I/σ(I): 25.4 |
Reflection shell | Resolution: 1.6→1.66 Å / Mean I/σ(I) obs: 28 / Rsym value: 0.065 / % possible all: 95.9 |
Reflection | *PLUS Lowest resolution: 40 Å / Num. measured all: 131724 / Rmerge(I) obs: 0.065 |
Reflection shell | *PLUS % possible obs: 96.5 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 15.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.6→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.6→1.7 Å / Rfactor Rfree error: 0.018 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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