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- PDB-5cjq: Crystal structure of a trimeric influenza hemagglutinin stem in c... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5cjq | ||||||
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Title | Crystal structure of a trimeric influenza hemagglutinin stem in complex with an broadly neutralizing antibody CR9114 | ||||||
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![]() | VIRAL PROTEIN/IMMUNE SYSTEM / hemagglutinin / trimer / influenza / immunogen / monoclonal / antibody / neutralizing / influenza vaccine / glycoprotein / VIRAL PROTEIN-IMMUNE SYSTEM complex | ||||||
Function / homology | Hemagglutinin Ectodomain; Chain B - #10 / Hemagglutinin Ectodomain; Chain B / Immunoglobulins / Alpha-Beta Complex / Immunoglobulin-like / Sandwich / Mainly Beta / Alpha Beta![]() | ||||||
Biological species | ![]() synthetic construct (others) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhu, X. / Wilson, I.A. | ||||||
![]() | ![]() Title: A stable trimeric influenza hemagglutinin stem as a broadly protective immunogen. Authors: Impagliazzo, A. / Milder, F. / Kuipers, H. / Wagner, M.V. / Zhu, X. / Hoffman, R.M. / van Meersbergen, R. / Huizingh, J. / Wanningen, P. / Verspuij, J. / de Man, M. / Ding, Z. / Apetri, A. / ...Authors: Impagliazzo, A. / Milder, F. / Kuipers, H. / Wagner, M.V. / Zhu, X. / Hoffman, R.M. / van Meersbergen, R. / Huizingh, J. / Wanningen, P. / Verspuij, J. / de Man, M. / Ding, Z. / Apetri, A. / Kukrer, B. / Sneekes-Vriese, E. / Tomkiewicz, D. / Laursen, N.S. / Lee, P.S. / Zakrzewska, A. / Dekking, L. / Tolboom, J. / Tettero, L. / van Meerten, S. / Yu, W. / Koudstaal, W. / Goudsmit, J. / Ward, A.B. / Meijberg, W. / Wilson, I.A. / Radosevic, K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 132.8 KB | Display | ![]() |
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PDB format | ![]() | 106.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 462.1 KB | Display | ![]() |
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Full document | ![]() | 512.4 KB | Display | |
Data in XML | ![]() | 30.4 KB | Display | |
Data in CIF | ![]() | 40.8 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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1 | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 22712.041 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#2: Antibody | Mass: 24423.191 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
#3: Protein | Mass: 7013.837 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() |
#4: Protein | Mass: 22043.598 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.18 Å3/Da / Density % sol: 61.35 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 8 Details: 0.1 M sodium citrate, pH 5.5, 1.64 M ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: May 31, 2014 |
Radiation | Monochromator: double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 3.6→50 Å / Num. obs: 11619 / % possible obs: 99.9 % / Redundancy: 8.5 % / Rsym value: 0.1 / Net I/σ(I): 22 |
Reflection shell | Resolution: 3.6→50 Å / Redundancy: 8.5 % / Mean I/σ(I) obs: 1.6 / Rsym value: 0.96 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.6→38.85 Å
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Refine LS restraints |
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LS refinement shell |
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