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Yorodumi- PDB-2vir: INFLUENZA VIRUS HEMAGGLUTININ COMPLEXED WITH A NEUTRALIZING ANTIBODY -
+Open data
-Basic information
Entry | Database: PDB / ID: 2vir | |||||||||
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Title | INFLUENZA VIRUS HEMAGGLUTININ COMPLEXED WITH A NEUTRALIZING ANTIBODY | |||||||||
Components |
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Keywords | COMPLEX (HEMAGGLUTININ/IMMUNOGLOBULIN) / COMPLEX (HEMAGGLUTININ-IMMUNOGLOBULIN) / GLYCOPROTEIN / COMPLEX (HEMAGGLUTININ-IMMUNOGLOBULIN) complex | |||||||||
Function / homology | Function and homology information immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / viral budding from plasma membrane / antigen binding / antibacterial humoral response / clathrin-dependent endocytosis of virus by host cell / blood microparticle / host cell surface receptor binding / fusion of virus membrane with host plasma membrane ...immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / viral budding from plasma membrane / antigen binding / antibacterial humoral response / clathrin-dependent endocytosis of virus by host cell / blood microparticle / 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 / extracellular exosome / membrane / metal ion binding Similarity search - Function | |||||||||
Biological species | Influenza A virus Mus musculus (house mouse) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 3.25 Å | |||||||||
Authors | Bizebard, T. / Fleury, D. / Gigant, B. / Wharton, S.A. / Skehel, J.J. / Knossow, M. | |||||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1998 Title: Antigen distortion allows influenza virus to escape neutralization. Authors: Fleury, D. / Wharton, S.A. / Skehel, J.J. / Knossow, M. / Bizebard, T. #1: Journal: Nature / Year: 1995 Title: Structure of Influenza Virus Haemagglutinin Complexed with a Neutralizing Antibody Authors: Bizebard, T. / Gigant, B. / Rigolet, P. / Rasmussen, B. / Diat, O. / Bosecke, P. / Wharton, S.A. / Skehel, J.J. / Knossow, M. #2: Journal: Acta Crystallogr.,Sect.D / Year: 1994 Title: Refined Three-Dimensional Structure of the Fab Fragment of a Murine Iggl, Authors: Bizebard, T. / Daniels, R. / Kahn, R. / Golinelli-Pimpaneau, B. / Skehel, J.J. / Knossow, M. #3: Journal: Nature / Year: 1981 Title: Structure of the Haemagglutinin Membrane Glycoprotein of Influenza Virus at 3 A Resolution Authors: Wilson, I.A. / Skehel, J.J. / Wiley, D.C. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2vir.cif.gz | 147.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2vir.ent.gz | 114.8 KB | Display | PDB format |
PDBx/mmJSON format | 2vir.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vi/2vir ftp://data.pdbj.org/pub/pdb/validation_reports/vi/2vir | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Antibody | Mass: 22596.021 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / Cell: HYBRIDOMA / Strain: BALB/C / References: GenBank: 387376 | ||
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#2: Antibody | Mass: 23777.783 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / Cell: HYBRIDOMA / Strain: BALB-C / References: GenBank: 4096752, UniProt: Q99LC4*PLUS | ||
#3: Protein | Mass: 31167.865 Da / Num. of mol.: 1 Fragment: PROTEOLYTIC FRAGMENT "HA TOP" CONTAINING HA1 RESIDUES 28 - 328 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Influenza A virus (A/X-31(H3N2)) / Genus: Influenzavirus A / Species: Influenza A virus / Strain: X31 Description: A REASSORTANT INFLUENZA STRAIN CONTAINING A/AICHI/68 (H3N2) HEMAGGLUTININ References: UniProt: P03437 | ||
#4: Chemical | Compound details | THE TWO MOLECULES (HEMAGGLUTININ "TOP" AND FAB FRAGMENT) ARE OBTAINED BY PROTEOLYSIS OF BIGGER ...THE TWO MOLECULES (HEMAGGLUTI | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.59 Å3/Da / Density % sol: 66 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 6 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: BW7B / Wavelength: 0.85 / Wavelength: 0.85, 1.2 | |||||||||
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Detector | Type: MARRESEARCH / Detector: IMAGE PLATE | |||||||||
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
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Reflection | Resolution: 3.25→20 Å / Num. obs: 17973 / % possible obs: 95 % / Redundancy: 4 % / Rmerge(I) obs: 0.075 | |||||||||
Reflection | *PLUS Num. measured all: 72480 |
-Processing
Software |
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Refinement | Resolution: 3.25→7 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 3.25→7 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.84 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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