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Crystal structure of ARQ 531 in complex with the kinase domain of BTK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 0.2M imidazole pH 7.0
16% (w/v) PEG 4000
12.5% ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.14 42.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.485 α = 90 b = 104.422 β = 90 c = 38.089 γ = 90
Symmetry Space Group P 21 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 PILATUS3 X 1M 2017-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9760 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.1 42.36 96.4 0.061 13.3 5.2 113726
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.12 0.547 0.794
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 FREE R-VALUE 1.15 8 96400 5146 98.12 0.13064 0.1312 0.15021 0.1502 RANDOM 17.88
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] 0.69 -0.26 -0.43
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 52.691 r_dihedral_angle_2_deg 32.885 r_dihedral_angle_4_deg 15.197 r_sphericity_bonded 12.484 r_dihedral_angle_3_deg 11.301 r_rigid_bond_restr 6.703 r_dihedral_angle_1_deg 6.254 r_long_range_B_refined 4.962 r_long_range_B_other 3.177 r_scangle_other 2.851
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 52.691 r_dihedral_angle_2_deg 32.885 r_dihedral_angle_4_deg 15.197 r_sphericity_bonded 12.484 r_dihedral_angle_3_deg 11.301 r_rigid_bond_restr 6.703 r_dihedral_angle_1_deg 6.254 r_long_range_B_refined 4.962 r_long_range_B_other 3.177 r_scangle_other 2.851 r_mcangle_it 2.406 r_mcangle_other 2.405 r_scbond_it 2.316 r_scbond_other 2.316 r_mcbond_it 1.953 r_mcbond_other 1.952 r_angle_refined_deg 1.516 r_angle_other_deg 0.926 r_chiral_restr 0.094 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2189 Nucleic Acid Atoms Solvent Atoms 414 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PDB_EXTRACT data extraction MOLREP phasing