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- PDB-1rmr: Crystal Structure of Schistatin, a Disintegrin Homodimer from saw... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1rmr | ||||||
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Title | Crystal Structure of Schistatin, a Disintegrin Homodimer from saw-scaled Viper (Echis carinatus) at 2.5 A resolution | ||||||
![]() | Disintegrin schistatin | ||||||
![]() | PROTEIN BINDING / disintegrin / homodimer / echis carinatus | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Bilgrami, S. / Tomar, S. / Yadav, S. / Kaur, P. / Kumar, J. / Jabeen, T. / Sharma, S. / Singh, T.P. | ||||||
![]() | ![]() Title: Crystal structure of schistatin, a disintegrin homodimer from saw-scaled viper (Echis carinatus) at 2.5 A resolution Authors: Bilgrami, S. / Tomar, S. / Yadav, S. / Kaur, P. / Kumar, J. / Jabeen, T. / Sharma, S. / Singh, T.P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 20.3 KB | Display | ![]() |
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PDB format | ![]() | 15.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 364.7 KB | Display | ![]() |
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Full document | ![]() | 365.3 KB | Display | |
Data in XML | ![]() | 2.8 KB | Display | |
Data in CIF | ![]() | 3.8 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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1 | ![]()
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Unit cell |
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Details | the biological assembly is a dimer, with only the monomer forming the asymmetric unit. The other monomer is generated by the symmetry operation: -X+2,-Y,Z |
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Components
#1: Protein | Mass: 7090.936 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.07 Å3/Da / Density % sol: 69.79 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 6 Details: ammonium sulfate, cacodylate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 12, 2000 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.541 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→20 Å / Num. obs: 3943 / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 10.3 % / Rsym value: 0.12 / Net I/σ(I): 17.8 |
Reflection shell | Resolution: 2.5→2.54 Å / Mean I/σ(I) obs: 2.7 / Rsym value: 0.3 / % possible all: 55 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 56.27 Å2
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Refine analyze | Luzzati coordinate error obs: 0.29 Å / Luzzati d res low obs: 4 Å / Luzzati sigma a obs: 0.37 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.562 Å / Total num. of bins used: 20 /
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