+Open data
-Basic information
Entry | Database: PDB / ID: 5b4m | ||||||
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Title | Crystal structure of an Fab against human influenza A | ||||||
Components |
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Keywords | IMMUNE SYSTEM / Human Influenza A / non-structure 1 / Fab | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.4 Å | ||||||
Authors | Yuan, Y.A. | ||||||
Citation | Journal: To Be Published Title: Crystal structure of an Fab against human influenza A Authors: Yuan, Y.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5b4m.cif.gz | 329.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5b4m.ent.gz | 280.6 KB | Display | PDB format |
PDBx/mmJSON format | 5b4m.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/b4/5b4m ftp://data.pdbj.org/pub/pdb/validation_reports/b4/5b4m | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS ensembles :
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-Components
#1: Antibody | Mass: 23993.029 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) #2: Antibody | Mass: 23931.182 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) |
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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: 1.99 Å3/Da / Density % sol: 38.25 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop / pH: 6.5 / Details: PEG 3350, NaCl, Bis-Tris |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SEALED TUBE / Type: OXFORD DIFFRACTION ENHANCE ULTRA / Wavelength: 1.5418 Å |
Detector | Type: OXFORD RUBY CCD / Detector: CCD / Date: Jul 7, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→81.38 Å / Num. obs: 27507 / % possible obs: 98.5 % / Redundancy: 3.5 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 16.1 |
Reflection shell | Resolution: 2.4→2.44 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.445 / Mean I/σ(I) obs: 2.2 / % possible all: 97.7 |
-Processing
Software |
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Refinement | Resolution: 2.4→81.38 Å / Cor.coef. Fo:Fc: 0.89 / Cor.coef. Fo:Fc free: 0.844 / SU B: 40.151 / SU ML: 0.412 / Cross valid method: THROUGHOUT / ESU R: 1.2 / ESU R Free: 0.412 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 39.122 Å2
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Refinement step | Cycle: 1 / Resolution: 2.4→81.38 Å
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Refine LS restraints |
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