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Open data
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Basic information
Entry | Database: PDB / ID: 1vr1 | ||||||
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Title | Specifity for Plasminogen Activator Inhibitor-1 | ||||||
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![]() | BLOOD CLOTTING/HYDROLASE INHIBITOR / ![]() | ||||||
Function / homology | ![]() negative regulation of serine-type peptidase activity / positive regulation of lipid kinase activity / positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway / cytolysis by host of symbiont cells / thrombospondin receptor activity / Defective factor XII causes hereditary angioedema / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Dekker, R.J. / Eichinger, A. / Stoop, A.A. / Bode, W. / Pannekoek, H. / Horrevoets, A.J.G. | ||||||
![]() | ![]() Title: The variable region-1 from tissue-type plasminogen activator confers specificity for plasminogen activator inhibitor-1 to thrombin by facilitating catalysis: release of a kinetic block by a ...Title: The variable region-1 from tissue-type plasminogen activator confers specificity for plasminogen activator inhibitor-1 to thrombin by facilitating catalysis: release of a kinetic block by a heterologous protein surface loop Authors: Dekker, R.J. / Eichinger, A. / Stoop, A.A. / Bode, W. / Pannekoek, H. / Horrevoets, A.J.G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 71.5 KB | Display | ![]() |
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PDB format | ![]() | 55.4 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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Unit cell |
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Components
#1: Protein/peptide | ![]() Mass: 3188.627 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Protein | ![]() Mass: 30186.732 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
#3: Protein/peptide | ![]() Mass: 1363.399 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
#4: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.63 Å3/Da / Density % sol: 53.3 % | |||||||||||||||||||||||||||||||||||
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Crystal grow![]() | pH: 7.6 / Details: pH 7.6 | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 6 ℃ / Method: vapor diffusion, hanging drop / Details: used to seeding / PH range low: 8.6 / PH range high: 7.4 | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 289 K |
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Diffraction source | Source: ![]() |
Detector | Detector: AREA DETECTOR |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.9→19.9 Å / Num. obs: 24804 / % possible obs: 92.2 % / Observed criterion σ(I): 2 / Redundancy: 2.3 % / Rmerge(I) obs: 0.094 / Rsym value: 0.094 |
Reflection shell | *PLUS Highest resolution: 1.93 Å / Lowest resolution: 2.04 Å / % possible obs: 81.8 % / Rmerge(I) obs: 0.439 |
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Processing
Software | Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure![]() ![]()
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Displacement parameters | Biso mean: 42.3 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→19.9 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.9 Å / σ(F): 0 / Num. reflection Rfree: 2487 / % reflection Rfree: 10 % / Rfactor obs: 0.204 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 42.3 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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