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CK2 alpha bound to unclosed 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 0.1 M MES pH 6.5
0.2 ammonia sulphate
30% PEG 5000 MME
10 mg/mL protein
Crystal Properties Matthews coefficient Solvent content 2.71 54.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.479 α = 90 b = 125.479 β = 90 c = 124.655 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 1.000031 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 2.75 44.36 99.9 0.045 0.998 10.5 9.6 26481
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 2.75 2.9 99.9 0.316 0.923
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 2.75 44.36 26427 1407 99.789 0.264 0.2626 0.2616 0.2838 0.2819 68.329
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] -0.185 -0.185 0.371
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.055 r_dihedral_angle_3_deg 16.246 r_dihedral_angle_4_deg 13.493 r_lrange_it 7.686 r_lrange_other 7.686 r_dihedral_angle_1_deg 6.725 r_mcangle_it 3.783 r_mcangle_other 3.783 r_scangle_it 3.387 r_scangle_other 3.386
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.055 r_dihedral_angle_3_deg 16.246 r_dihedral_angle_4_deg 13.493 r_lrange_it 7.686 r_lrange_other 7.686 r_dihedral_angle_1_deg 6.725 r_mcangle_it 3.783 r_mcangle_other 3.783 r_scangle_it 3.387 r_scangle_other 3.386 r_mcbond_it 2.234 r_mcbond_other 2.232 r_scbond_it 1.935 r_scbond_other 1.934 r_angle_other_deg 1.5 r_angle_refined_deg 1.376 r_nbd_refined 0.219 r_nbd_other 0.211 r_symmetry_xyhbond_nbd_refined 0.185 r_nbtor_refined 0.18 r_symmetry_nbd_other 0.175 r_xyhbond_nbd_refined 0.121 r_symmetry_nbd_refined 0.112 r_ncsr_local_group_1 0.096 r_chiral_restr 0.082 r_symmetry_nbtor_other 0.079 r_ext_dist_refined_d 0.044 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5323 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing