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Open data
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Basic information
Entry | Database: PDB / ID: 6wkl | ||||||
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Title | Fab Fragment of Anti-human LAG3 antibody (BAP050) | ||||||
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![]() | IMMUNE SYSTEM / Anti Human LAG3 | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Agnihotri, P. / Mishra, A.K. / Mariuzza, R.A. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Fab Fragment of Anti-human LAG3 antibody Authors: Agnihotri, P. / Mishra, A.K. / Mariuzza, R.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 132.4 KB | Display | ![]() |
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PDB format | ![]() | 80.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 447.1 KB | Display | ![]() |
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Full document | ![]() | 448 KB | Display | |
Data in XML | ![]() | 22.2 KB | Display | |
Data in CIF | ![]() | 33.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6wjuC ![]() 6wk4C ![]() 1mimS S: Starting model for refinement C: citing same article ( |
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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: Antibody | Mass: 25862.857 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Antibody | Mass: 23702.148 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
#3: Chemical | ChemComp-TRS / |
#4: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.45 % |
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Crystal grow | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 7.5 / Details: PEG 8000, HEPES Na / PH range: 7-7.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Nov 2, 2019 |
Radiation | Monochromator: Double crystal cryo-cooled / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 1.89→45.31 Å / Num. obs: 41427 / % possible obs: 97 % / Redundancy: 3 % / Biso Wilson estimate: 27.76 Å2 / CC1/2: 0.98 / Rmerge(I) obs: 0.1 / Rpim(I) all: 0.095 / Rrim(I) all: 0.13 / Χ2: 0.95 / Net I/σ(I): 5.9 |
Reflection shell | Resolution: 1.89→1.94 Å / Redundancy: 2.2 % / Rmerge(I) obs: 0.9 / Mean I/σ(I) obs: 1 / Num. unique obs: 2239 / CC1/2: 0.23 / Rpim(I) all: 0.89 / Χ2: 0.92 / % possible all: 82.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1mim Resolution: 1.89→45.31 Å / SU ML: 0.2238 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 23.1692 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.23 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.89→45.31 Å
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Refine LS restraints |
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LS refinement shell |
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