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- PDB-4b41: Crystal structure of an amyloid-beta binding single chain antibody G7 -
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Open data
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Basic information
Entry | Database: PDB / ID: 4b41 | ||||||
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Title | Crystal structure of an amyloid-beta binding single chain antibody G7 | ||||||
![]() | ANTIBODY G7 | ||||||
![]() | IMMUNE SYSTEM / ALZHEIMER'S DISEASE | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Beringer, D.X. / Dorresteijn, B. / Rutten, L. / Wienk, H. / el Khattabi, M. / Kroon-Batenburg, L.M.J. / Verrips, C.T. | ||||||
![]() | ![]() Title: Crystal Structure of an Amyloid-Beta Binding Single Chain Antibody G7 Authors: Beringer, D.X. / Dorresteijn, B. / Rutten, L. / Wienk, H. / El Khattabi, M. / Kroon-Batenburg, L.M.J. / Verrips, C.T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.7 KB | Display | ![]() |
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PDB format | ![]() | 88.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 437 KB | Display | ![]() |
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Full document | ![]() | 438.4 KB | Display | |
Data in XML | ![]() | 14.4 KB | Display | |
Data in CIF | ![]() | 21.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3ezjS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 12667.176 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-CL / #3: Chemical | ChemComp-GOL / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.75 Å3/Da / Density % sol: 29.6 % / Description: NONE |
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Crystal grow | pH: 5.2 / Details: 0.1 M NA CITRATE PH 5.2, 0.2 NACL, 26-30% PEG8K |
-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Aug 19, 2010 / Details: DYNAMICALLY BENDABLE MIRROR |
Radiation | Monochromator: LN2 COOLED FIXED-EXIT SI(111) MONOCHROMATOR / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.19→49.94 Å / Num. obs: 50156 / % possible obs: 85.1 % / Observed criterion σ(I): 6.7 / Redundancy: 3.4 % / Biso Wilson estimate: 10.26 Å2 / Rmerge(I) obs: 0.03 / Net I/σ(I): 18.6 |
Reflection shell | Resolution: 1.19→1.26 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.15 / Mean I/σ(I) obs: 6.7 / % possible all: 62.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3EZJ Resolution: 1.191→49.936 Å / SU ML: 0.09 / σ(F): 1.96 / Phase error: 18.48 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 0 Å2 / ksol: 0 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 15.4 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.191→49.936 Å
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Refine LS restraints |
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LS refinement shell |
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