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Yorodumi- PDB-6rbb: CRYSTAL STRUCTURE OF the VhH-domain of anti-IL-17A antibody netakimab -
+Open data
-Basic information
Entry | Database: PDB / ID: 6rbb | ||||||
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Title | CRYSTAL STRUCTURE OF the VhH-domain of anti-IL-17A antibody netakimab | ||||||
Components | VHH domain of netakimab | ||||||
Keywords | IMMUNE SYSTEM / VHH / antibody netakimab / complementarity determining regions / IL-17A / psoriasis | ||||||
Biological species | Lama glama (llama) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.45 Å | ||||||
Authors | Kostareva, O.S. / Kolyadenko, I.A. / Ulitin, A.B. / Ekimova, V.M. / Evdokimov, S.R. / Garber, M.B. / Tishchenko, T.V. / Gabdulkhakov, A.G. | ||||||
Funding support | Russian Federation, 1items
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Citation | Journal: To Be Published Title: CRYSTAL STRUCTURE OF the VhH-domain of anti-IL-17A antibody netakimab Authors: Kostareva, O.S. / Kolyadenko, I.A. / Ulitin, A.B. / Ekimova, V.M. / Evdokimov, S.R. / Garber, M.B. / Tishchenko, T.V. / Gabdulkhakov, A.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6rbb.cif.gz | 101.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6rbb.ent.gz | 78.9 KB | Display | PDB format |
PDBx/mmJSON format | 6rbb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rb/6rbb ftp://data.pdbj.org/pub/pdb/validation_reports/rb/6rbb | HTTPS FTP |
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-Related structure data
Related structure data | 6qkdS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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4 |
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Unit cell |
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-Components
#1: Antibody | Mass: 13241.626 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Lama glama (llama) / Production host: Cricetulus griseus (Chinese hamster) #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.43 Å3/Da / Density % sol: 49.37 % |
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Crystal grow | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 5 Details: 50mMNa AcpH 5.5, 150mMNaCl with 0.1M Citrate pH 5, 20% (w/v) PEG 6000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID23-1 / Wavelength: 1.0332 Å |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Oct 27, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 |
Reflection | Resolution: 2.38→50 Å / Num. obs: 21024 / % possible obs: 98.3 % / Redundancy: 5.1 % / CC1/2: 0.996 / Rrim(I) all: 0.154 / Net I/σ(I): 9.1 |
Reflection shell | Resolution: 2.38→2.52 Å / Mean I/σ(I) obs: 1.4 / Num. unique obs: 3076 / % possible all: 90.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 6QKD Resolution: 2.45→41.846 Å / SU ML: 0.34 / Cross valid method: FREE R-VALUE / σ(F): 0.02 / Phase error: 32.24
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.45→41.846 Å
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Refine LS restraints |
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LS refinement shell |
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