4CYW

Structure of the A_mallard_Sweden_51_2002 H10 Avian Haemmaglutinin in complex with human receptor analog 6-SLN


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4CYVPDB ENTRY 4CYV

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
118% PEG 2000MME AND 0.1 M BICINE PH 9.0
Crystal Properties
Matthews coefficientSolvent content
3.4564.41

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.973α = 90
b = 215.446β = 104.91
c = 79.363γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUSMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04DiamondI04

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
12.648.8599.10.0711.83.6679051.8
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)
12.62.6699.80.691.83.7

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 4CYV2.6107.7264439342899.060.210670.208340.25402RANDOM60.888
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]
-1.46-1.06-2.073.59
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.789
r_dihedral_angle_3_deg14.645
r_dihedral_angle_4_deg12.533
r_dihedral_angle_1_deg5.485
r_mcangle_it1.362
r_angle_refined_deg1.008
r_scbond_it0.889
r_mcbond_it0.774
r_mcbond_other0.774
r_angle_other_deg0.72
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.789
r_dihedral_angle_3_deg14.645
r_dihedral_angle_4_deg12.533
r_dihedral_angle_1_deg5.485
r_mcangle_it1.362
r_angle_refined_deg1.008
r_scbond_it0.889
r_mcbond_it0.774
r_mcbond_other0.774
r_angle_other_deg0.72
r_chiral_restr0.071
r_bond_refined_d0.005
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 Atoms11427
Nucleic Acid Atoms
Solvent Atoms285
Heterogen Atoms393

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing