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- PDB-4ppt: Engineered Dual Specific VHH Antibody in Complex with a Nickel (I... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4ppt | ||||||
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Title | Engineered Dual Specific VHH Antibody in Complex with a Nickel (II) Ion | ||||||
![]() | Engineered single domain VHH antibody | ||||||
![]() | IMMUNE SYSTEM / Single domain antibody / VHH / Metalloregulation / Bispecific / Dual-Function / Protein Engineering / Affinity Control / Protein-Switch / Antibody Engineering / Nickel Binding Protein / Protein-Metal Coordination Geometry / Loop Dynamics / Protein Flexibility / Antibody-metal Complex | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / NICKEL (II) ION![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Fanning, S.W. / Walter, R. / Horn, J.R. | ||||||
![]() | ![]() Title: Structural basis of an engineered dual-specific antibody: conformational diversity leads to a hypervariable loop metal-binding site. Authors: Fanning, S.W. / Walter, R. / Horn, J.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 | ![]() | 34.3 KB | Display | ![]() |
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PDB format | ![]() | 26 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 432.1 KB | Display | ![]() |
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Full document | ![]() | 432.8 KB | Display | |
Data in XML | ![]() | 7.9 KB | Display | |
Data in CIF | ![]() | 10.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-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: 12942.348 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-NI / |
#3: Chemical | ChemComp-SO4 / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.36 % |
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Crystal grow | Temperature: 298.15 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 1.8 M Ammonium Citrate Tribasic, 0.2 M Ammonium Acetate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.15K |
-Data collection
Diffraction source | Source: ![]() ![]() ![]() |
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Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Jul 13, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→50 Å / Num. obs: 110728 / % possible obs: 99.8 % / Observed criterion σ(I): 2 / Redundancy: 11.8 % |
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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: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 22.84 Å2
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Refinement step | Cycle: LAST / Resolution: 1.5→34.64 Å
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Refine LS restraints |
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