4BGX

H5 (VN1194) Influenza Virus Haemagglutinin in Complex with Human Receptor Analogue 6'-SLN


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2IBXPDB ENTRY 2IBX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.1 M HEPES PH 7.0, 0.05 M MGCL2, 28-30% PEG 550
Crystal Properties
Matthews coefficientSolvent content
3.9869.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 101.338α = 90
b = 101.338β = 90
c = 451.102γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2012-04-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-1DiamondI04-1

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
12.4837.1599.90.0717.29.2322493
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)
12.482.6199.80.6337.9

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 2IBX2.4837.1830613163499.820.19480.193610.21776RANDOM76.792
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]
2.172.172.17-7.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.265
r_dihedral_angle_4_deg15.902
r_dihedral_angle_3_deg15.72
r_dihedral_angle_1_deg6.19
r_scbond_it2.257
r_mcangle_it2.25
r_mcbond_it1.388
r_mcbond_other1.386
r_angle_refined_deg1.245
r_angle_other_deg0.711
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.265
r_dihedral_angle_4_deg15.902
r_dihedral_angle_3_deg15.72
r_dihedral_angle_1_deg6.19
r_scbond_it2.257
r_mcangle_it2.25
r_mcbond_it1.388
r_mcbond_other1.386
r_angle_refined_deg1.245
r_angle_other_deg0.711
r_chiral_restr0.065
r_bond_refined_d0.008
r_gen_planes_refined0.004
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 Atoms3859
Nucleic Acid Atoms
Solvent Atoms211
Heterogen Atoms89

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing