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Open data
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Basic information
Entry | Database: PDB / ID: 3zhk | ||||||
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Title | The crystal structure of single domain antibody 2x1 scaffold | ||||||
![]() | MG2X1 SCAFFOLD ANTIBODY | ||||||
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Function / homology | ![]() CD22 mediated BCR regulation / Fc epsilon receptor (FCERI) signaling / ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Song, H.-N. / Woo, E.-J. / Lim, H.-K. | ||||||
![]() | ![]() Title: Directed Evolution of Human Heavy Chain Variable Domain (Vh) Using in Vivo Protein Fitness Filter. Authors: Kim, D. / Song, H. / Nam, H.J. / Kim, S. / Park, Y. / Park, J. / Woo, E. / Lim, H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 51.5 KB | Display | ![]() |
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PDB format | ![]() | 41 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: Antibody | Mass: 13752.169 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #2: Chemical | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.35 Å3/Da / Density % sol: 63.34 % / Description: NONE |
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Crystal grow![]() | Details: 37% PEG8K, 0.2M AMMONIUM SULFATE |
-Data collection
Diffraction | Mean temperature: 95 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jul 6, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.96→50 Å / Num. obs: 24632 / % possible obs: 99.2 % / Observed criterion σ(I): 1 / Redundancy: 6.9 % / Biso Wilson estimate: 28.16 Å2 / Rmerge(I) obs: 0.1 / Net I/σ(I): 39.1 |
Reflection shell | Resolution: 1.96→1.99 Å / Redundancy: 5.3 % / Rmerge(I) obs: 0.31 / Mean I/σ(I) obs: 9.3 / % possible all: 92.5 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Shrinkage radii: 1.11 Å / VDW probe radii: 1.3 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 54.163 Å2 / ksol: 0.367 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.962→31.975 Å
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Refine LS restraints |
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LS refinement shell |
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