6HG5

Influenza A virus N6 neuraminidase complex with Oseltamivir (Duck/England/56).


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1V0Z 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP293N6 crystals were grown by hanging-drop vapour diffusion against 1:1 20%(w/v) PEG-3350 and 2 microM CaCl2 in 150mM NaCl at 20 degrees celsius, starting with equal volumes of N6 (20mg/ml in saline) and 20% (w/v) PEG 3350 and 2 microM in 1% saline. Microseeding with crystals of native N6 was carried out using a super saturated solution of N6 NA in 20% PEG 3350.
Crystal Properties
Matthews coefficientSolvent content
2.4750.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 106.209α = 90
b = 75.181β = 90.52
c = 106.386γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 41999-12-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-20.98SSRLBL9-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.661.47980.072143.4215801
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.61.6395.40.22153.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1V0Z1.661.472050291077297.760.134080.132790.15844RANDOM11.164
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.15-0.01-0.260.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.833
r_dihedral_angle_1_deg22.078
r_dihedral_angle_4_deg17.081
r_dihedral_angle_3_deg12.577
r_long_range_B_refined5.021
r_long_range_B_other5.021
r_angle_refined_deg2.003
r_scangle_other1.631
r_angle_other_deg1.137
r_scbond_it1.058
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.833
r_dihedral_angle_1_deg22.078
r_dihedral_angle_4_deg17.081
r_dihedral_angle_3_deg12.577
r_long_range_B_refined5.021
r_long_range_B_other5.021
r_angle_refined_deg2.003
r_scangle_other1.631
r_angle_other_deg1.137
r_scbond_it1.058
r_scbond_other1.058
r_mcangle_other0.658
r_mcangle_it0.657
r_mcbond_it0.404
r_mcbond_other0.403
r_chiral_restr0.11
r_bond_refined_d0.019
r_gen_planes_refined0.012
r_bond_other_d0.003
r_gen_planes_other0.003
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms12036
Nucleic Acid Atoms
Solvent Atoms1827
Heterogen Atoms605

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
REFMACphasing