+Open data
-Basic information
Entry | Database: PDB / ID: 6nou | ||||||
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Title | An scFv derived from ixekizumab | ||||||
Components | scFv derived from ixekizumab | ||||||
Keywords | IMMUNE SYSTEM / IL17 / IL-17 / Ixekizumab / scFv / antibody | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution: 1.914 Å | ||||||
Authors | Durbin, J.D. / Clawson, D.K. / Lu, F. / Tian, Y. / Lu, J. / Atwell, S. | ||||||
Citation | Journal: Mabs / Year: 2019 Title: Development of tibulizumab, a tetravalent bispecific antibody targeting BAFF and IL-17A for the treatment of autoimmune disease. Authors: Benschop, R.J. / Chow, C.K. / Tian, Y. / Nelson, J. / Barmettler, B. / Atwell, S. / Clawson, D. / Chai, Q. / Jones, B. / Fitchett, J. / Torgerson, S. / Ji, Y. / Bina, H. / Hu, N. / Ghanem, M. ...Authors: Benschop, R.J. / Chow, C.K. / Tian, Y. / Nelson, J. / Barmettler, B. / Atwell, S. / Clawson, D. / Chai, Q. / Jones, B. / Fitchett, J. / Torgerson, S. / Ji, Y. / Bina, H. / Hu, N. / Ghanem, M. / Manetta, J. / Wroblewski, V.J. / Lu, J. / Allan, B.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6nou.cif.gz | 59.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6nou.ent.gz | 44.5 KB | Display | PDB format |
PDBx/mmJSON format | 6nou.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/no/6nou ftp://data.pdbj.org/pub/pdb/validation_reports/no/6nou | HTTPS FTP |
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-Related 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: 27895.145 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Homo sapiens (human) |
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#2: Chemical | ChemComp-GOL / |
#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: 2.32 Å3/Da / Density % sol: 46.94 % / Description: 50um cube |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, sitting drop / pH: 7 / Details: 2800mM Sodium Acetate pH 7 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.3.1 / Wavelength: 1.1159 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jan 14, 2011 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1.1159 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 1.914→63.652 Å / Num. obs: 19243 / % possible obs: 94.3 % / Redundancy: 6 % / Biso Wilson estimate: 29.19 Å2 / Rpim(I) all: 0.026 / Rrim(I) all: 0.065 / Rsym value: 0.054 / Net I/av σ(I): 12.8 / Net I/σ(I): 20.8 / Num. measured all: 116086 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Phasing
Phasing | Method: molecular replacement |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.914→63.65 Å / Cor.coef. Fo:Fc: 0.942 / Cor.coef. Fo:Fc free: 0.91 / SU R Cruickshank DPI: 0.145 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.154 / SU Rfree Blow DPI: 0.149 / SU Rfree Cruickshank DPI: 0.145
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Displacement parameters | Biso max: 87.84 Å2 / Biso mean: 31.19 Å2 / Biso min: 14.28 Å2
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Refine analyze | Luzzati coordinate error obs: 0.22 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.914→63.65 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.914→1.94 Å / Rfactor Rfree error: 0
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