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Open data
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Basic information
Entry | Database: PDB / ID: 5mhr | ||||||
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Title | T3D reovirus sigma1 complexed with 9BG5 Fab fragments | ||||||
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![]() | IMMUNE SYSTEM / reovirus sigma1 / virus antibody complex / neutralization / VIRAL PROTEIN | ||||||
Function / homology | ![]() virion component => GO:0044423 / cell adhesion / symbiont entry into host cell / virion attachment to host cell Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Stehle, T. / Dietrich, M.H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural Insights into Reovirus sigma 1 Interactions with Two Neutralizing Antibodies. Authors: Dietrich, M.H. / Ogden, K.M. / Katen, S.P. / Reiss, K. / Sutherland, D.M. / Carnahan, R.H. / Goff, M. / Cooper, T. / Dermody, T.S. / Stehle, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 1.1 MB | Display | ![]() |
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PDB format | ![]() | 947.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 524.5 KB | Display | ![]() |
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Full document | ![]() | 544.4 KB | Display | |
Data in XML | ![]() | 97.1 KB | Display | |
Data in CIF | ![]() | 131.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5mhsC ![]() 1figS ![]() 2oj5S S: Starting model for refinement C: citing same article ( |
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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: Protein | Mass: 17921.033 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Antibody | Mass: 23282.822 Da / Num. of mol.: 6 / Source method: isolated from a natural source Details: DUE TO POORLY DEFINED ELECTRON DENSITY THE CONSTANT REGION OF THE FAB FRAGMENT WAS NOT BUILT FOR CHAIN J AND CHAIN L Source: (natural) ![]() ![]() #3: Antibody | Mass: 23527.369 Da / Num. of mol.: 6 / Source method: isolated from a natural source Details: DUE TO POORLY DEFINED ELECTRON DENSITY THE CONSTANT REGION OF THE FAB FRAGMENT WAS NOT BUILT FOR CHAIN K AND CHAIN M Source: (natural) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.18 Å3/Da / Density % sol: 61.33 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 11% (w/v) PEG8000, 0.1 M Tris pH 7.0, 0.2 M magnesium chloride |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 2M-F / Detector: PIXEL / Date: Mar 22, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3→49.045 Å / Num. obs: 94667 / % possible obs: 98.5 % / Redundancy: 3.6 % / Biso Wilson estimate: 55.9 Å2 / Net I/σ(I): 13.08 |
Reflection shell | Resolution: 3→3.08 Å / Redundancy: 3.7 % / Mean I/σ(I) obs: 1.89 / % possible all: 98.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2OJ5 AND 1FIG Resolution: 3→49.05 Å / SU ML: 0.42 / Cross valid method: FREE R-VALUE / σ(F): 1.97 / Phase error: 25.66
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3→49.05 Å
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Refine LS restraints |
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LS refinement shell |
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