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- PDB-6z2t: Three-dimensional structure of an influenza hemagglutinin LAH pro... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6z2t | ||||||
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Title | Three-dimensional structure of an influenza hemagglutinin LAH protein in its post-fusion conformation | ||||||
![]() | Hemagglutinin | ||||||
![]() | VIRAL PROTEIN / Hemagglutinin stem / Long alpha helix / Influenza / Post-fusion conformation / Tri-stalk protein | ||||||
Function / homology | Haemagglutinin, influenzavirus B / Haemagglutinin / Haemagglutinin, influenzavirus A/B / membrane => GO:0016020 / host cell surface receptor binding / fusion of virus membrane with host plasma membrane / viral envelope / PHOSPHATE ION / Hemagglutinin![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kirsteina, A. / Kazaks, A. / Tars, K. | ||||||
![]() | ![]() Title: Three-dimensional structure of an influenza hemagglutinin LAH protein Authors: Kirsteina, A. / Kazaks, A. / Tars, 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 | ![]() | 26.6 KB | Display | ![]() |
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PDB format | ![]() | 15.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 416 KB | Display | ![]() |
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Full document | ![]() | 416.1 KB | Display | |
Data in XML | ![]() | 4.7 KB | Display | |
Data in CIF | ![]() | 5.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6golS S: Starting model for refinement |
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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
#1: Protein | Mass: 6964.825 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: ![]() ![]() |
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#2: Chemical | ChemComp-PO4 / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 47 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, sitting drop / pH: 6.7 Details: 0.15 M H6NO4P and 40% MPD; pH 6.7; protein 10 mg/mL |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Apr 1, 2017 / Details: RH-COATED TOROIDAL SI MIRROR |
Radiation | Monochromator: KMC-1 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 1.34→55.52 Å / Num. obs: 15916 / % possible obs: 99.5 % / Redundancy: 7.1 % / Biso Wilson estimate: 20.069 Å2 / Rmerge(I) obs: 0.05 / Net I/σ(I): 13.3 |
Reflection shell | Resolution: 1.34→1.42 Å / Redundancy: 7 % / Rmerge(I) obs: 0.583 / Mean I/σ(I) obs: 2.5 / Num. unique obs: 2234 / % possible all: 98.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6GOL Resolution: 1.34→41.68 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.956 / SU B: 1.479 / SU ML: 0.055 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.06 / ESU R Free: 0.062 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 76.34 Å2 / Biso mean: 25.219 Å2 / Biso min: 15.28 Å2
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Refinement step | Cycle: final / Resolution: 1.34→41.68 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.343→1.378 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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