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Crystal structure of human Casein Kinase II subunit alpha (CK2a1) in complex with allosteric ligand FGJM24
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 0.1 M bis-tris pH 5.5
23-26% (v/v) PEG 3350
0.2 M ammonia sulphate
Crystal Properties Matthews coefficient Solvent content 3.13 60.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.743 α = 90 b = 126.743 β = 90 c = 125.725 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2024-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 3 126.74 100 0.997 9.1 27.2 21155
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.18 0.803
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3 89.62 20125 976 99.99 0.21151 0.20961 0.2265 0.25067 0.2691 RANDOM 62.906
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] 2.39 2.39 -4.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.82 r_dihedral_angle_2_deg 14.175 r_long_range_B_other 11.565 r_long_range_B_refined 11.559 r_scangle_other 8.216 r_dihedral_angle_1_deg 7.317 r_mcangle_it 5.939 r_mcangle_other 5.939 r_scbond_it 5.247 r_scbond_other 5.247
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.82 r_dihedral_angle_2_deg 14.175 r_long_range_B_other 11.565 r_long_range_B_refined 11.559 r_scangle_other 8.216 r_dihedral_angle_1_deg 7.317 r_mcangle_it 5.939 r_mcangle_other 5.939 r_scbond_it 5.247 r_scbond_other 5.247 r_mcbond_it 3.73 r_mcbond_other 3.73 r_angle_refined_deg 1.502 r_angle_other_deg 0.524 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 Atoms Number Protein Atoms 5459 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 179
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing