+Open data
-Basic information
Entry | Database: PDB / ID: 5hcg | ||||||
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Title | CRYSTAL STRUCTURE OF FREE-CODV. | ||||||
Components |
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Keywords | IMMUNE SYSTEM / cross-over dual variable immunoglobin / multifunctional biotherapeutic format / bispecific property / CODV | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta Function and homology information | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.68 Å | ||||||
Authors | Vallee, F. / Dupuy, A. / Rak, A. | ||||||
Citation | Journal: Mabs / Year: 2016 Title: CODV-Ig, a universal bispecific tetravalent and multifunctional immunoglobulin format for medical applications. Authors: Steinmetz, A. / Vallee, F. / Beil, C. / Lange, C. / Baurin, N. / Beninga, J. / Capdevila, C. / Corvey, C. / Dupuy, A. / Ferrari, P. / Rak, A. / Wonerow, P. / Kruip, J. / Mikol, V. / Rao, E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5hcg.cif.gz | 141 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5hcg.ent.gz | 108.7 KB | Display | PDB format |
PDBx/mmJSON format | 5hcg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hc/5hcg ftp://data.pdbj.org/pub/pdb/validation_reports/hc/5hcg | HTTPS FTP |
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-Related structure data
Related structure data | 5fhxSC 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
#1: Antibody | Mass: 37281.578 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) |
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#2: Antibody | Mass: 36166.180 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.34 Å3/Da / Density % sol: 47.34 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / Details: HEPES 0,1M, PEG 2000 MME 17.5% / PH range: 7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID29 / Wavelength: 0.976 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Feb 25, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.976 Å / Relative weight: 1 |
Reflection | Resolution: 2.68→49.3 Å / Num. obs: 20335 / % possible obs: 99.8 % / Redundancy: 12.7 % / Biso Wilson estimate: 74.32 Å2 / Net I/σ(I): 32.7 |
Reflection shell | Resolution: 2.68→2.83 Å / Redundancy: 1.7 % / Mean I/σ(I) obs: 4.8 / % possible all: 99.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: CODV part of 5FHX Resolution: 2.68→49.16 Å / Cor.coef. Fo:Fc: 0.9205 / Cor.coef. Fo:Fc free: 0.8646 / SU R Cruickshank DPI: 3.507 / Cross valid method: THROUGHOUT / σ(F): 0 / SU Rfree Blow DPI: 0.398 / SU Rfree Cruickshank DPI: 0.395
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Displacement parameters | Biso mean: 71.1 Å2
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Refine analyze | Luzzati coordinate error obs: 0.412 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.68→49.16 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.68→2.83 Å / Total num. of bins used: 10
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