3GBN

Crystal Structure of Fab CR6261 in Complex with the 1918 H1N1 influenza virus hemagglutinin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ADQpdb entries 1ADQ, 1RUZ
experimental modelPDB 1RUZpdb entries 1ADQ, 1RUZ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.329510.5% PEG 3K, 100mM NaAco 5.2, 50mM NaCl, Cryoprotectant: 25% glycerol, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
3.3162.88

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 201.918α = 90
b = 202.249β = 90
c = 202.707γ = 90
Symmetry
Space GroupI 21 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray75CCDMARMOSAIC 300 mm CCD2008-10-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-B1.03333APS23-ID-B

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
12.2501000.1130.920.7714382
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)
12.22.2571000.792.325.3

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 entries 1ADQ, 1RUZ2.239.7262751339195.080.206740.204870.24142RANDOM28.767
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.241
r_dihedral_angle_4_deg16.354
r_dihedral_angle_3_deg14.875
r_scangle_it7.549
r_dihedral_angle_1_deg7.035
r_scbond_it5.814
r_mcangle_it3.295
r_mcbond_it2.012
r_angle_refined_deg1.685
r_angle_other_deg0.967
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.241
r_dihedral_angle_4_deg16.354
r_dihedral_angle_3_deg14.875
r_scangle_it7.549
r_dihedral_angle_1_deg7.035
r_scbond_it5.814
r_mcangle_it3.295
r_mcbond_it2.012
r_angle_refined_deg1.685
r_angle_other_deg0.967
r_mcbond_other0.58
r_chiral_restr0.101
r_bond_refined_d0.018
r_gen_planes_refined0.008
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6167
Nucleic Acid Atoms
Solvent Atoms293
Heterogen Atoms131

Software

Software
Software NamePurpose
Blu-Icedata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling