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Crystal structure of the Abl 1b Kinase domain in complex with Dasatinib and Imatinib
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GQG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 Ammonium dihydrogen phosphate
Crystal Properties Matthews coefficient Solvent content 2.88 57.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.933 α = 90 b = 166.879 β = 90 c = 186.817 γ = 90
Symmetry Space Group I 2 2 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 CCD RAYONIX MX300-HS 2018-03-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.2 46.7 99.9 0.083 0.03 0.999 15.1 8.6 55951 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 98.6 1.184 0.762 8.7
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2GQG 2.2 46.7 55936 2704 99.759 0.219 0.2174 0.2511 0.2505 52.067
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] 3.585 -1.887 -1.698
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.255 r_dihedral_angle_3_deg 14.41 r_dihedral_angle_4_deg 11.506 r_lrange_it 7.474 r_lrange_other 7.473 r_dihedral_angle_1_deg 6.712 r_scangle_it 5.909 r_scangle_other 5.908 r_mcangle_it 4.741 r_mcangle_other 4.741
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.255 r_dihedral_angle_3_deg 14.41 r_dihedral_angle_4_deg 11.506 r_lrange_it 7.474 r_lrange_other 7.473 r_dihedral_angle_1_deg 6.712 r_scangle_it 5.909 r_scangle_other 5.908 r_mcangle_it 4.741 r_mcangle_other 4.741 r_scbond_it 3.845 r_scbond_other 3.843 r_mcbond_it 3.17 r_mcbond_other 3.17 r_angle_refined_deg 1.289 r_angle_other_deg 1.244 r_nbd_refined 0.196 r_nbd_other 0.195 r_symmetry_nbd_other 0.176 r_nbtor_refined 0.17 r_symmetry_nbd_refined 0.159 r_symmetry_xyhbond_nbd_refined 0.145 r_xyhbond_nbd_refined 0.139 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.056 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5886 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 215
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing