+Open data
-Basic information
Entry | Database: PDB / ID: 2wrg | |||||||||
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Title | structure of H1 1918 hemagglutinin with human receptor | |||||||||
Components |
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Keywords | VIRAL PROTEIN / ENVELOPE PROTEIN / GLYCOPROTEIN / LIPOPROTEIN | |||||||||
Function / homology | Function and homology information viral budding from plasma membrane / clathrin-dependent endocytosis of virus by host cell / host cell surface receptor binding / 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 / membrane Similarity search - Function | |||||||||
Biological species | INFLUENZA A VIRUS | |||||||||
Method | X-RAY DIFFRACTION / OTHER / Resolution: 3 Å | |||||||||
Authors | Liu, J. / Stevens, D.J. / Haire, L.F. / Walker, P.A. / Coombs, P.J. / Russell, R.J. / Gamblin, S.J. / Skehel, J.J. | |||||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2009 Title: From the Cover: Structures of Receptor Complexes Formed by Hemagglutinins from the Asian Influenza Pandemic of 1957. Authors: Liu, J. / Stevens, D.J. / Haire, L.F. / Walker, P.A. / Coombs, P.J. / Russell, R.J. / Gamblin, S.J. / Skehel, J.J. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2wrg.cif.gz | 292.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2wrg.ent.gz | 240.5 KB | Display | PDB format |
PDBx/mmJSON format | 2wrg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wr/2wrg ftp://data.pdbj.org/pub/pdb/validation_reports/wr/2wrg | HTTPS FTP |
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-Related structure data
Related structure data | 2wr0C 2wr1C 2wr2C 2wr3C 2wr4C 2wr5C 2wr7C 2wrbC 2wrcC 2wrdC 2wreC 2wrfC 2wrhC C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS ensembles :
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-Components
#1: Protein | Mass: 35999.309 Da / Num. of mol.: 3 / Fragment: RESIDUES 18-343 / Source method: isolated from a natural source Source: (natural) INFLUENZA A VIRUS (A/BREVIG MISSION/1/1918(H1N1)) References: UniProt: Q9WFX3 #2: Protein | Mass: 25047.072 Da / Num. of mol.: 3 / Fragment: RESIDUES 345-566 / Source method: isolated from a natural source Source: (natural) INFLUENZA A VIRUS (A/BREVIG MISSION/1/1918(H1N1)) References: UniProt: Q9WFX3 #3: Polysaccharide | N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D- ...N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose | Source method: isolated from a genetically manipulated source #4: Sugar | ChemComp-NAG / |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.54 Å3/Da / Density % sol: 68.9 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Wavelength: 1.5418 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3→30 Å / Num. obs: 46270 / % possible obs: 98.5 % / Observed criterion σ(I): 1.3 / Redundancy: 5.1 % / Biso Wilson estimate: 77.87 Å2 / Rmerge(I) obs: 0.16 |
-Processing
Software | Name: PHENIX / Version: (PHENIX.REFINE) / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: OTHER Starting model: NONE Resolution: 3→29.68 Å / SU ML: 2.41 / σ(F): 0.02 / Phase error: 30.6 / Stereochemistry target values: MLHL
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 48.06 Å2 / ksol: 0.282 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 3→29.68 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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LS refinement shell |
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