+Open data
-Basic information
Entry | Database: PDB / ID: 4m6n | ||||||
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Title | Crystal structure of anti-IL-23 antibody CNTO1959 at pH 6.5 | ||||||
Components |
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Keywords | IMMUNE SYSTEM / immunoglobulin fold / antibody | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / FORMIC ACID Function and homology information | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2 Å | ||||||
Authors | Teplyakov, A. / Obmolova, G. / Gilliland, G.L. | ||||||
Citation | Journal: To be Published Title: crystal structure of anti-IL-23 antibody CNTO1959 at pH 6.5 Authors: Teplyakov, A. / Obmolova, G. / Gilliland, G.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4m6n.cif.gz | 103.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4m6n.ent.gz | 77.2 KB | Display | PDB format |
PDBx/mmJSON format | 4m6n.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4m6n_validation.pdf.gz | 437.5 KB | Display | wwPDB validaton report |
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Full document | 4m6n_full_validation.pdf.gz | 438.8 KB | Display | |
Data in XML | 4m6n_validation.xml.gz | 20.8 KB | Display | |
Data in CIF | 4m6n_validation.cif.gz | 31.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m6/4m6n ftp://data.pdbj.org/pub/pdb/validation_reports/m6/4m6n | HTTPS FTP |
-Related structure data
Related structure data | 1aqkS 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: 22767.201 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): HEK 293 / Production host: Homo sapiens (human) | ||
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#2: Antibody | Mass: 24513.561 Da / Num. of mol.: 1 / Fragment: FD Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): HEK 293 / 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: 2.83 Å3/Da / Density % sol: 56.5 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.1 M MES, pH 6.5, 2.5 M sodium formate, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 115 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 HF / Wavelength: 1.5418 / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU SATURN 944 / Detector: CCD / Date: Mar 6, 2007 / Details: mirrors |
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→30 Å / Num. all: 34225 / Num. obs: 34225 / % possible obs: 98.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 6.4 % / Biso Wilson estimate: 29.2 Å2 / Rmerge(I) obs: 0.065 |
Reflection shell | Resolution: 2→2.09 Å / Redundancy: 2.8 % / Rmerge(I) obs: 0.335 / % possible all: 78.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1AQK Resolution: 2→15 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.931 / SU B: 4.104 / SU ML: 0.11 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.164 / ESU R Free: 0.158 / Stereochemistry target values: Engh & Huber
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK | |||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 38 Å2
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Refinement step | Cycle: LAST / Resolution: 2→15 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.09 Å / Total num. of bins used: 20
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