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Crystal structure of human Casein Kinase II subunit alpha (CK2a1) in complex with allosteric ligand FGC3331
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 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 3.16 61.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.158 α = 90 b = 128.158 β = 90 c = 124.014 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 EIGER X 16M 2023-05-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000031 SLS X06SA
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 2.6 45.31 100 0.995 9.3 13.4 32423
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 2.6 2.72 0.672 1.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.6 45.31 30701 1664 99.96 0.21563 0.21381 0.24636 0.238 RANDOM 50.748
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] 0.77 0.77 -1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.943 r_dihedral_angle_2_deg 15.102 r_long_range_B_refined 8.78 r_long_range_B_other 8.78 r_dihedral_angle_1_deg 6.649 r_scangle_other 5.294 r_mcangle_it 3.55 r_mcangle_other 3.549 r_scbond_it 3.465 r_scbond_other 3.465
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.943 r_dihedral_angle_2_deg 15.102 r_long_range_B_refined 8.78 r_long_range_B_other 8.78 r_dihedral_angle_1_deg 6.649 r_scangle_other 5.294 r_mcangle_it 3.55 r_mcangle_other 3.549 r_scbond_it 3.465 r_scbond_other 3.465 r_mcbond_it 2.187 r_mcbond_other 2.187 r_angle_refined_deg 1.508 r_angle_other_deg 0.531 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 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 5418 Nucleic Acid Atoms Solvent Atoms 67 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing