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- PDB-3ra7: Bispecific digoxigenin binding antibodies for targeted payload de... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3ra7 | ||||||
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Title | Bispecific digoxigenin binding antibodies for targeted payload delivery | ||||||
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![]() | IMMUNE SYSTEM / Fab fragment / Antibody Engineering / Cancer / targeted payload delivery | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / DIGOXIGENIN![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hopfner, K.P. / Lammens, A. | ||||||
![]() | ![]() Title: Bispecific digoxigenin-binding antibodies for targeted payload delivery Authors: Metz, S. / Haas, A.K. / Daub, K. / Croasdale, R. / Stracke, J. / Lau, W. / Georges, G. / Josel, H.P. / Dziadek, S. / Hopfner, K.P. / Lammens, A. / Scheuer, W. / Hoffmann, E. / Mundigl, O. / Brinkmann, U. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 186.7 KB | Display | ![]() |
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PDB format | ![]() | 147.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3cfdS 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: 23577.113 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Antibody | Mass: 24387.355 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.07 Å3/Da / Density % sol: 59.91 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: 60%(v/v) 2-methyl-1,3-propandiol(MPD), 0.1M sodium acetate, 5mM CaCl2, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Sep 11, 2009 |
Radiation | Monochromator: Si 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.798→50 Å / Num. all: 30092 / Num. obs: 30038 / % possible obs: 70.5 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 |
Reflection shell | Resolution: 2.8→2.97 Å / % possible all: 99.1 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3cfd Resolution: 2.798→46.04 Å / Occupancy max: 1 / Occupancy min: 0 / SU ML: 2.83 / σ(F): 2 / Phase error: 21.26 / 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: 29.648 Å2 / ksol: 0.315 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 94.77 Å2 / Biso mean: 26.1603 Å2 / Biso min: 6.94 Å2
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Refinement step | Cycle: LAST / Resolution: 2.798→46.04 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 11
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