4CQP

Crystal Structure of H5 (VN1194) Ser227Asn/Gln196Arg Mutant Haemagglutinin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4BGWPDB ENTRY 4BGW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.1 M HEPES/MOPS PH 7.0, 0.05 M MGCL2, 28-30% PEG 550 MME, SEEDED WITH CRUSHED WILD-TYPE VN1194 HA CRYSTALS.
Crystal Properties
Matthews coefficientSolvent content
3.7467

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 100.635α = 90
b = 100.635β = 90
c = 448.712γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I02DiamondI02

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.6543.371000.19.78.1260692.1
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.652.791000.622.17.9

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 REPLACEMENTTHROUGHOUTPDB ENTRY 4BGW2.65149.5724721132799.890.195550.193310.2379RANDOM101.64
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]
2.941.472.94-9.55
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.389
r_dihedral_angle_3_deg16.159
r_dihedral_angle_4_deg11.542
r_dihedral_angle_1_deg5.687
r_mcangle_it4.091
r_scbond_it3.307
r_mcbond_it2.521
r_mcbond_other2.51
r_angle_refined_deg1.07
r_angle_other_deg0.677
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.389
r_dihedral_angle_3_deg16.159
r_dihedral_angle_4_deg11.542
r_dihedral_angle_1_deg5.687
r_mcangle_it4.091
r_scbond_it3.307
r_mcbond_it2.521
r_mcbond_other2.51
r_angle_refined_deg1.07
r_angle_other_deg0.677
r_chiral_restr0.059
r_bond_refined_d0.006
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
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_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3863
Nucleic Acid Atoms
Solvent Atoms23
Heterogen Atoms182

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
SCALAdata scaling
PHASERphasing