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Crystal Structure of the Human CAMKK2B in complex with AP26113-analog (ALK-IN-1)
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 6 293 26% PEG 3350, 0.2 M Ammonium Sulphate, 0.1M sbg buffer pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.52 51.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.8 α = 72.38 b = 54.861 β = 78.35 c = 56.633 γ = 89.74
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 0.96861 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.2 19.73 92.8 0.078 0.11 0.078 0.995 5.8 1.8 28914
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.27 92 0.326 0.461 0.326 0.493 1.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5UYJ 2.2 19.73 27411 1499 92.76 0.21585 0.21319 0.2183 0.26522 0.2681 RANDOM 46.729
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] -0.75 -1.92 3.18 1.77 0.74 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.505 r_dihedral_angle_4_deg 19.789 r_dihedral_angle_3_deg 13.873 r_long_range_B_refined 7.644 r_long_range_B_other 7.619 r_dihedral_angle_1_deg 6.364 r_scangle_other 5.406 r_mcangle_it 5.351 r_mcangle_other 5.351 r_scbond_it 3.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.505 r_dihedral_angle_4_deg 19.789 r_dihedral_angle_3_deg 13.873 r_long_range_B_refined 7.644 r_long_range_B_other 7.619 r_dihedral_angle_1_deg 6.364 r_scangle_other 5.406 r_mcangle_it 5.351 r_mcangle_other 5.351 r_scbond_it 3.625 r_scbond_other 3.624 r_mcbond_it 3.572 r_mcbond_other 3.566 r_angle_refined_deg 1.555 r_angle_other_deg 0.965 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 3967 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 73
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing