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CK2 alpha bound to Macrocycle
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PE2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.2 M ammonia sulphate, 0.1 MES pH 6.5, 31-35% (v/v) polyethylene glycol PEG 5000 MME
10 mg / mL protein
Crystal Properties Matthews coefficient Solvent content 2.87 57.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.649 α = 90 b = 128.649 β = 90 c = 125.454 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 PILATUS 2M-F 2018-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.999998 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 2.4 45.48 100 0.027 0.999 16.9 14.9 41786
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 0.426 0.718
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3PE2 2.4 45.48 41726 2065 99.976 0.218 0.2168 0.2212 0.2324 0.2343 56.533
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] 0.21 0.21 -0.421
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.73 r_dihedral_angle_4_deg 16.248 r_dihedral_angle_3_deg 14.888 r_lrange_it 8.078 r_lrange_other 8.078 r_dihedral_angle_1_deg 6.428 r_scangle_it 5.282 r_scangle_other 5.26 r_mcangle_it 4.993 r_mcangle_other 4.993
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.73 r_dihedral_angle_4_deg 16.248 r_dihedral_angle_3_deg 14.888 r_lrange_it 8.078 r_lrange_other 8.078 r_dihedral_angle_1_deg 6.428 r_scangle_it 5.282 r_scangle_other 5.26 r_mcangle_it 4.993 r_mcangle_other 4.993 r_scbond_it 3.297 r_scbond_other 3.275 r_mcbond_it 3.108 r_mcbond_other 3.107 r_angle_other_deg 1.512 r_angle_refined_deg 1.459 r_nbd_refined 0.219 r_nbtor_refined 0.178 r_symmetry_nbd_other 0.174 r_symmetry_nbd_refined 0.165 r_nbd_other 0.165 r_symmetry_xyhbond_nbd_refined 0.158 r_xyhbond_nbd_refined 0.117 r_chiral_restr 0.094 r_symmetry_nbtor_other 0.08 r_ext_dist_refined_d 0.048 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_symmetry_xyhbond_nbd_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5450 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 100
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing