9EQ0

Crystal structure of human Casein Kinase II subunit alpha (CK2a1) in complex with allosteric ligand FGJG12


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.1 M bis-tris pH 5.5 23-26% (v/v) PEG 3350 0.2 M ammonia sulphate
Crystal Properties
Matthews coefficientSolvent content
3.1460.77

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 126.497α = 90
b = 126.497β = 90
c = 126.444γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M-F2019-08-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA0.999998SLSX06DA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)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
13.1544.761000.997.826.318361
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.153.370.6841.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT3.1544.761735196299.940.256160.255130.27446RANDOM53.385
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]
-0.64-0.641.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg19.055
r_dihedral_angle_2_deg8.69
r_dihedral_angle_1_deg6.23
r_long_range_B_other3.795
r_long_range_B_refined3.793
r_scangle_other1.876
r_angle_refined_deg1.487
r_mcangle_other1.381
r_mcangle_it1.378
r_scbond_it1.183
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg19.055
r_dihedral_angle_2_deg8.69
r_dihedral_angle_1_deg6.23
r_long_range_B_other3.795
r_long_range_B_refined3.793
r_scangle_other1.876
r_angle_refined_deg1.487
r_mcangle_other1.381
r_mcangle_it1.378
r_scbond_it1.183
r_scbond_other1.183
r_mcbond_it0.752
r_mcbond_other0.752
r_angle_other_deg0.561
r_chiral_restr0.083
r_bond_refined_d0.007
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
r_dihedral_angle_4_deg
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5187
Nucleic Acid Atoms
Solvent Atoms2
Heterogen Atoms96

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
XDSdata reduction
MOLREPphasing