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Open data
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Basic information
Entry | Database: PDB / ID: 4osu | ||||||
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Title | Crystal structure of HCMV gB-neutralizing SM5-1 Fab fragment | ||||||
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![]() | IMMUNE SYSTEM / Immunoglobulin / Immune response / HCMV neutralization / HCMV glycoprotein B | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / FORMIC ACID![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Diestel, U. / Muller, Y.A. | ||||||
![]() | ![]() Title: Structural basis for the recognition of human cytomegalovirus glycoprotein B by a neutralizing human antibody. Authors: Spindler, N. / Diestel, U. / Stump, J.D. / Wiegers, A.K. / Winkler, T.H. / Sticht, H. / Mach, M. / Muller, Y.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 186.2 KB | Display | ![]() |
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PDB format | ![]() | 156.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 455.2 KB | Display | ![]() |
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Full document | ![]() | 464.5 KB | Display | |
Data in XML | ![]() | 23.3 KB | Display | |
Data in CIF | ![]() | 34.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Antibody | Mass: 24878.018 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() | ||||
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#2: Antibody | Mass: 22583.115 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() | ||||
#3: Chemical | ChemComp-FMT / #4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.82 Å3/Da / Density % sol: 56.35 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 4M sodium formate, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX-225 / Detector: CCD / Date: Jul 14, 2012 |
Radiation | Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 1.87→46.32 Å / Num. all: 45559 / Num. obs: 43280 / % possible obs: 99.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 2.5 |
Reflection shell | Resolution: 1.87→1.92 Å / % possible all: 99.2 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 30.279 Å2
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Refinement step | Cycle: LAST / Resolution: 1.87→46.32 Å
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Refine LS restraints |
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