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- PDB-1yy8: Crystal structure of the Fab fragment from the monoclonal antibod... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1yy8 | ||||||
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Title | Crystal structure of the Fab fragment from the monoclonal antibody cetuximab/Erbitux/IMC-C225 | ||||||
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![]() | IMMUNE SYSTEM / FAB FRAGMENT / ANTIBODY DRUG / CANCER | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li, S. / Schmitz, K.R. / Jeffrey, P.D. / Wiltzius, J.J.W. / Kussie, P. / Ferguson, K.M. | ||||||
![]() | ![]() Title: Structural basis for inhibition of the epidermal growth factor receptor by cetuximab Authors: Li, S. / Schmitz, K.R. / Jeffrey, P.D. / Wiltzius, J.J.W. / Kussie, P. / Ferguson, K.M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 179.7 KB | Display | ![]() |
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PDB format | ![]() | 143.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 450.4 KB | Display | ![]() |
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Full document | ![]() | 466.2 KB | Display | |
Data in XML | ![]() | 35.6 KB | Display | |
Data in CIF | ![]() | 51 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1yy9C ![]() 1ad9S ![]() 1ibgS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 23287.705 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus, Homo sapiens / Genus: Mus, Homo / Species: , / Strain: , / Plasmid: pdHL2 / Cell (production host): mouse myeloma cell line / Production host: ![]() ![]() #2: Antibody | Mass: 23725.504 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus, Homo sapiens / Genus: Mus, Homo / Species: , / Strain: , / Plasmid: pdHL2 / Cell (production host): mouse myeloma cell line / Production host: ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.87 Å3/Da / Density % sol: 56.7 % |
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 6.5 Details: Ammonium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. all: 73414 / Num. obs: 73414 / % possible obs: 95.6 % / Observed criterion σ(I): 0.5 / Redundancy: 8.6 % / Rmerge(I) obs: 0.073 / Rsym value: 0.073 / Net I/σ(I): 12.7 |
Reflection shell | Resolution: 2→2.07 Å / Rmerge(I) obs: 0.297 / Mean I/σ(I) obs: 5.5 / % possible all: 0.968 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb ids 1IBG, 1AD9 Resolution: 2→15 Å / Data cutoff high absF: 10000 / Data cutoff low absF: 0 / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2→15 Å
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Refine LS restraints |
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