+Open data
-Basic information
Entry | Database: PDB / ID: 5v7u | ||||||
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Title | Cyrstal structure of anti-Tau antibody CBTAU-22.1 Fab | ||||||
Components |
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Keywords | IMMUNE SYSTEM / antibody / Fab / tau protein / alzheimer's disease | ||||||
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: 1.64 Å | ||||||
Authors | Zhu, X. / Zhang, H. / Wilson, I.A. | ||||||
Citation | Journal: Acta Neuropathol. / Year: 2017 Title: Immunological memory to hyperphosphorylated tau in asymptomatic individuals. Authors: Pascual, G. / Wadia, J.S. / Zhu, X. / Keogh, E. / Kukrer, B. / van Ameijde, J. / Inganas, H. / Siregar, B. / Perdok, G. / Diefenbach, O. / Nahar, T. / Sprengers, I. / Koldijk, M.H. / der ...Authors: Pascual, G. / Wadia, J.S. / Zhu, X. / Keogh, E. / Kukrer, B. / van Ameijde, J. / Inganas, H. / Siregar, B. / Perdok, G. / Diefenbach, O. / Nahar, T. / Sprengers, I. / Koldijk, M.H. / der Linden, E.C. / Peferoen, L.A. / Zhang, H. / Yu, W. / Li, X. / Wagner, M. / Moreno, V. / Kim, J. / Costa, M. / West, K. / Fulton, Z. / Chammas, L. / Luckashenak, N. / Fletcher, L. / Holland, T. / Arnold, C. / Anthony Williamson, R. / Hoozemans, J.J. / Apetri, A. / Bard, F. / Wilson, I.A. / Koudstaal, W. / Goudsmit, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5v7u.cif.gz | 193.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5v7u.ent.gz | 150.3 KB | Display | PDB format |
PDBx/mmJSON format | 5v7u.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/v7/5v7u ftp://data.pdbj.org/pub/pdb/validation_reports/v7/5v7u | HTTPS FTP |
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-Related structure data
Related structure data | 5v7rC 4jpkS 4lriS C: citing same article (ref.) S: Starting model for refinement |
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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: 24089.922 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): FreeStyle 293-F / Production host: Homo sapiens (human) | ||
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#2: Antibody | Mass: 23891.828 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): FreeStyle 293-F / Production host: Homo sapiens (human) | ||
#3: Chemical | #4: 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: 2.29 Å3/Da / Density % sol: 46.27 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 4 Details: 0.1 M citrate buffer, pH 4.0, 2.4 M ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 23-ID-B / Wavelength: 1.0332 Å |
Detector | Type: MARMOSAIC 300 mm CCD / Detector: CCD / Date: Nov 15, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 |
Reflection | Resolution: 1.64→50 Å / Num. obs: 53078 / % possible obs: 99.9 % / Redundancy: 3.7 % / CC1/2: 0.995 / Rpim(I) all: 0.05 / Rsym value: 0.08 / Net I/σ(I): 23.7 |
Reflection shell | Resolution: 1.64→1.67 Å / Redundancy: 3.5 % / CC1/2: 0.684 / Rpim(I) all: 0.41 / Rsym value: 0.66 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4LRI, 4JPK Resolution: 1.64→45.691 Å / SU ML: 0.21 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 22.63
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.64→45.691 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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