+Open data
-Basic information
Entry | Database: PDB / ID: 6z7x | ||||||
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Title | Insulin analytical antibody OXI-005 Fab | ||||||
Components |
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Keywords | PROTEIN BINDING / insulin / analytical antibody / Fab | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.15 Å | ||||||
Authors | Johansson, E. | ||||||
Citation | Journal: Protein Sci. / Year: 2021 Title: Insulin binding to the analytical antibody sandwich pair OXI-005 and HUI-018: Epitope mapping and binding properties. Authors: Johansson, E. / Wu, X. / Yu, B. / Yang, Z. / Cao, Z. / Wiberg, C. / Jeppesen, C.B. / Poulsen, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6z7x.cif.gz | 114.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6z7x.ent.gz | 76.4 KB | Display | PDB format |
PDBx/mmJSON format | 6z7x.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6z7x_validation.pdf.gz | 434.4 KB | Display | wwPDB validaton report |
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Full document | 6z7x_full_validation.pdf.gz | 440.1 KB | Display | |
Data in XML | 6z7x_validation.xml.gz | 19.1 KB | Display | |
Data in CIF | 6z7x_validation.cif.gz | 27.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/z7/6z7x ftp://data.pdbj.org/pub/pdb/validation_reports/z7/6z7x | HTTPS FTP |
-Related structure data
Related structure data | 6z7wC 6z7yC 6z7zC 2xknS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Antibody | Mass: 23539.068 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Production host: Homo sapiens (human) |
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#2: Antibody | Mass: 23757.602 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Production host: Homo sapiens (human) |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.2 Å3/Da / Density % sol: 44.18 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 0.2 M ammonium sulfate, 20 % (w/v) PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SLS / Beamline: X06DA / Wavelength: 1 Å |
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Nov 22, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.15→45.92 Å / Num. obs: 23390 / % possible obs: 99.88 % / Redundancy: 6.4 % / Biso Wilson estimate: 43.81 Å2 / CC1/2: 0.999 / CC star: 1 / Rmerge(I) obs: 0.08822 / Rpim(I) all: 0.03762 / Rrim(I) all: 0.09612 / Net I/σ(I): 12.75 |
Reflection shell | Resolution: 2.15→2.227 Å / Redundancy: 6.6 % / Rmerge(I) obs: 1.127 / Mean I/σ(I) obs: 1.54 / Num. unique obs: 14881 / CC1/2: 0.612 / CC star: 0.871 / Rpim(I) all: 0.4737 / Rrim(I) all: 1.224 / % possible all: 99.91 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2XKN Resolution: 2.15→45.92 Å / SU ML: 0.3321 / Cross valid method: FREE R-VALUE / σ(F): 1.05 / Phase error: 28.2289
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 47.6 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.15→45.92 Å
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Refine LS restraints |
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LS refinement shell |
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