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Open data
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Basic information
Entry | Database: PDB / ID: 1i8n | ||||||
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Title | CRYSTAL STRUCTURE OF LEECH ANTI-PLATELET PROTEIN | ||||||
![]() | ANTI-PLATELET PROTEIN | ||||||
![]() | TOXIN / PAN MODULE | ||||||
Function / homology | Hepatocyte Growth Factor / Hepatocyte Growth Factor / 3-Layer(bba) Sandwich / extracellular region / Alpha Beta / PROPIONAMIDE / Anti-platelet protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Huizinga, E.G. / Schouten, A. / Connolly, T.M. / Kroon, J. / Sixma, J.J. / Gros, P. | ||||||
![]() | ![]() Title: The structure of leech anti-platelet protein, an inhibitor of haemostasis. Authors: Huizinga, E.G. / Schouten, A. / Connolly, T.M. / Kroon, J. / Sixma, J.J. / Gros, P. #1: ![]() Title: An inhibitor of Collagen-Stimulated Platelet Activation from the salivary glands of the Haementeria Officinalis Leech. I. Identification, Isolation, and Characterization Authors: Connolly, T.M. / Jacobs, J.W. / Condra, C. #2: ![]() Title: An inhibitor of Collagen-Stimulated Platelet Activation from the salivary glands of the Haementeria Officinalis Leech. II. Cloning of the cDNA and Expression Authors: Keller, P.M. / Schultz, L.D. / Condra, C. / Karczewski, J. / Connolly, T.M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 66.5 KB | Display | ![]() |
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PDB format | ![]() | 53.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 459.9 KB | Display | ![]() |
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Full document | ![]() | 462.3 KB | Display | |
Data in XML | ![]() | 14.8 KB | Display | |
Data in CIF | ![]() | 20.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 13767.517 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: LAPP / Plasmid: PKH4 ALPHA 2 / Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.36 Å3/Da / Density % sol: 63.4 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 4.3 Details: MPD, sodium citrate, pH 4.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 | |||||||||||||||||||||||||
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: Jan 1, 1996 |
Radiation | Monochromator: Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8825 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→20 Å / Num. all: 27864 / Num. obs: 27864 / % possible obs: 97.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3.7 / Redundancy: 4.4 % / Biso Wilson estimate: 36.4 Å2 / Rmerge(I) obs: 0.037 / Net I/σ(I): 35.6 |
Reflection shell | Resolution: 2.2→2.25 Å / Redundancy: 3.8 % / Rmerge(I) obs: 0.253 / Mean I/σ(I) obs: 5.1 / Num. unique all: 1822 / Rsym value: 0.253 / % possible all: 96.5 |
Reflection | *PLUS Lowest resolution: 20 Å |
Reflection shell | *PLUS Lowest resolution: 2.23 Å / % possible obs: 96.5 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Bsol: 42.9627 Å2 / ksol: 0.359435 e/Å3 | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 41.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.018
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.2 Å / Lowest resolution: 20 Å / σ(F): 0 / Rfactor obs: 0.215 / Rfactor Rfree: 0.24 | ||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 41.6 Å2 | ||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.332 / Rfactor Rwork: 0.312 |