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Open data
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Basic information
Entry | Database: PDB / ID: 1sb2 | ||||||
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Title | High resolution Structure determination of rhodocetin | ||||||
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![]() | TOXIN / C-type lectin / domain swapping | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Paaventhan, P. / Kong, C.G. / Joseph, J.S. / Chung, M.C.M. / Kolatkar, P.R. | ||||||
![]() | ![]() Title: Structure of rhodocetin reveals noncovalently bound heterodimer interface Authors: Paaventhan, P. / Kong, C.G. / Joseph, J.S. / Chung, M.C.M. / Kolatkar, P.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 63.9 KB | Display | ![]() |
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PDB format | ![]() | 51 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 429.2 KB | Display | ![]() |
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Full document | ![]() | 452.5 KB | Display | |
Data in XML | ![]() | 14.6 KB | Display | |
Data in CIF | ![]() | 20 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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Unit cell |
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Components
#1: Protein | Mass: 15982.993 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: organism name synonym: Agkistrodon rhodostoma Source: (natural) ![]() References: UniProt: P81397 |
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#2: Protein | Mass: 15213.371 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: organism name synonym: Agkistrodon rhodostoma Source: (natural) ![]() References: UniProt: P81398 |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.89 Å3/Da / Density % sol: 57.1 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: NaH2PO4, KH2PO4, HEPES-Na, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: May 29, 2001 / Details: mirror |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.978569 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→28.87 Å / Num. all: 28995 / Num. obs: 27466 / % possible obs: 97.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 1.9→1.97 Å / % possible all: 78.7 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: MAXIMUM LIKELIHOOD WITH PHASES Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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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: 24.568 Å2
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Refinement step | Cycle: LAST / Resolution: 1.9→28.87 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→1.949 Å / Total num. of bins used: 20 /
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