2B91

Crystal structure of the interleukin-4 variant F82DR85A


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529452% Ammonium sulfate, 0.1M Sodium citrate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.961.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 91.2α = 90
b = 91.2β = 90
c = 46γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93IMAGE PLATERIGAKU RAXIS IVRigaku VariMax mirror2004-08-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-0071.5418

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
1226.498.90.0519.25.31360113092
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)
122.0798.20.2785.25.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1HIK220134451276766498.860.207530.207530.204960.25773RANDOM28.752
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]
0.060.06-0.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.844
r_scangle_it2.879
r_mcangle_it2.36
r_scbond_it1.763
r_angle_refined_deg1.379
r_mcbond_it1.36
r_symmetry_vdw_refined0.33
r_symmetry_hbond_refined0.295
r_nbd_refined0.239
r_xyhbond_nbd_refined0.238
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.844
r_scangle_it2.879
r_mcangle_it2.36
r_scbond_it1.763
r_angle_refined_deg1.379
r_mcbond_it1.36
r_symmetry_vdw_refined0.33
r_symmetry_hbond_refined0.295
r_nbd_refined0.239
r_xyhbond_nbd_refined0.238
r_chiral_restr0.096
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_nbtor_refined
r_nbtor_other
r_dihedral_angle_3_deg
r_bond_other_d
r_metal_ion_refined
r_metal_ion_other
r_dihedral_angle_4_deg
r_symmetry_vdw_other
r_angle_other_deg
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_sphericity_bonded
r_mcbond_other
r_gen_planes_other
r_dihedral_angle_2_deg
r_nbd_other
r_rigid_bond_restr
r_sphericity_free
r_xyhbond_nbd_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1039
Nucleic Acid Atoms
Solvent Atoms124
Heterogen Atoms15

Software

Software
Software NamePurpose
REFMACrefinement
CrystalCleardata reduction
CrystalCleardata scaling
CNSphasing