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- PDB-6q0o: human antibody H2227 lineage 652 in complex with influenza hemagg... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6q0o | |||||||||
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Title | human antibody H2227 lineage 652 in complex with influenza hemagglutinin head domain of A/Solomon Islands/3/2006(H1N1) | |||||||||
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![]() | IMMUNE SYSTEM / antibody | |||||||||
Function / homology | ![]() viral budding from plasma membrane / clathrin-dependent endocytosis of virus by host cell / host cell surface receptor binding / apical plasma membrane / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / host cell plasma membrane / virion membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | McCarthy, K.R. / Harrison, S.C. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Affinity maturation in a human humoral response to influenza hemagglutinin. Authors: McCarthy, K.R. / Raymond, D.D. / Do, K.T. / Schmidt, A.G. / Harrison, S.C. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 141 KB | Display | ![]() |
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PDB format | ![]() | 111.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 775.1 KB | Display | ![]() |
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Full document | ![]() | 780.3 KB | Display | |
Data in XML | ![]() | 25 KB | Display | |
Data in CIF | ![]() | 33.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6q0eC ![]() 6q0hC ![]() 6q0iC ![]() 6q0lC ![]() 6q18C ![]() 6q19C ![]() 6q1aC ![]() 6q1eC ![]() 6q1gC ![]() 6q1jC ![]() 6q1kC 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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Unit cell |
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Components on special symmetry positions |
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 25140.014 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Antibody , 2 types, 2 molecules BZ
#2: Antibody | Mass: 22687.021 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#3: Antibody | Mass: 25679.598 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
-Sugars , 2 types, 4 molecules ![](data/chem/img/NAG.gif)
#4: Polysaccharide | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta- ...beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose Source method: isolated from a genetically manipulated source |
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#7: Sugar |
-Non-polymers , 3 types, 7 molecules ![](data/chem/img/TRS.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/1PE.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/1PE.gif)
#5: Chemical | #6: Chemical | ChemComp-GOL / #8: Chemical | ChemComp-1PE / | |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.45 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: 500mM sodium chloride, 10% (w/v) PEG 4000, 50mM Tris-HCl |
-Data collection
Diffraction | Mean temperature: 80 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Oct 17, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 3→48.024 Å / Num. obs: 16932 / % possible obs: 99.76 % / Redundancy: 6 % / CC1/2: 0.994 / Rmerge(I) obs: 0.148 / Net I/σ(I): 11.25 |
Reflection shell | Resolution: 3→3.107 Å / Rmerge(I) obs: 1.056 / Num. unique obs: 1670 / CC1/2: 0.765 / % possible all: 99.7 |
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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 | |||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 174.39 Å2 / Biso mean: 79.6817 Å2 / Biso min: 23.87 Å2 | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3→48.024 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / % reflection obs: 100 %
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