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Crystal Structure of the Human CAMKK2B in complex with CP673451
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5UYJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 28% PEG 3350; 0.07 M Ammonium Acetate; 0.1M SBG buffer pH 5.5
cryo - 30% glycerol
Crystal Properties Matthews coefficient Solvent content 2.24 45.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.998 α = 90 b = 77.681 β = 90 c = 78.064 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS3 6M 2017-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.968610 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 19.78 93.6 0.058 0.031 0.999 13.1 5.2 22633
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.94 76.8 0.931 0.579 0.599 1.8 4.8
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5UYJ 1.9 19.78 21526 1059 93.57 0.18772 0.18588 0.22652 0.2312 RANDOM 38.596
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] 1.12 -1.67 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.176 r_dihedral_angle_4_deg 16.436 r_dihedral_angle_3_deg 12.241 r_long_range_B_refined 5.926 r_long_range_B_other 5.926 r_dihedral_angle_1_deg 5.437 r_scangle_other 4.397 r_mcangle_it 3.162 r_mcangle_other 3.161 r_scbond_it 2.788
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.176 r_dihedral_angle_4_deg 16.436 r_dihedral_angle_3_deg 12.241 r_long_range_B_refined 5.926 r_long_range_B_other 5.926 r_dihedral_angle_1_deg 5.437 r_scangle_other 4.397 r_mcangle_it 3.162 r_mcangle_other 3.161 r_scbond_it 2.788 r_scbond_other 2.787 r_mcbond_it 2.108 r_mcbond_other 2.106 r_angle_refined_deg 1.334 r_angle_other_deg 0.912 r_chiral_restr 0.085 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 2062 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing