9EPY

Crystal structure of human Casein Kinase II subunit alpha (CK2a1) in complex with allosteric ligand FGC3330


X-RAY DIFFRACTION

Serial Crystallography (SX)

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.52930.1 M bis-tris pH 5.5 23-26% (v/v) PEG 3350 0.2 M ammonia sulphate
Crystal Properties
Matthews coefficientSolvent content
3.0960.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 126.645α = 90
b = 126.645β = 90
c = 124.25γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2023-05-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA1.000030SLSX06SA

Serial Crystallography

Sample delivery method
Diffraction IDDescriptionSample Delivery Method
1fixed target

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
12.6544.8299.90.99810.213.230001
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)
12.652.780.761

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 REPLACEMENTTHROUGHOUT2.6544.8228464148099.930.228480.226420.26864RANDOM71.729
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]
3.993.99-7.98
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg17.075
r_dihedral_angle_2_deg11.976
r_long_range_B_refined8.617
r_long_range_B_other8.617
r_dihedral_angle_1_deg6.85
r_scangle_other6.653
r_mcangle_it5.641
r_mcangle_other5.64
r_scbond_it4.506
r_scbond_other4.469
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg17.075
r_dihedral_angle_2_deg11.976
r_long_range_B_refined8.617
r_long_range_B_other8.617
r_dihedral_angle_1_deg6.85
r_scangle_other6.653
r_mcangle_it5.641
r_mcangle_other5.64
r_scbond_it4.506
r_scbond_other4.469
r_mcbond_it3.762
r_mcbond_other3.759
r_angle_refined_deg1.447
r_angle_other_deg0.55
r_chiral_restr0.082
r_bond_refined_d0.006
r_gen_planes_refined0.006
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 Atoms5343
Nucleic Acid Atoms
Solvent Atoms20
Heterogen Atoms167

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
XDSdata reduction
MOLREPphasing