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Crystal structure of the covalently bonded complex of rilzabrutinib with BTK
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other PREVIOUSLY SOLVED STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 PEG 5000 MME AMMONIUM SULFATE MES
Crystal Properties Matthews coefficient Solvent content 2.44 49.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.81 α = 90 b = 76.684 β = 96.46 c = 88.321 γ = 90
Symmetry Space Group P 1 21 1
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 2015-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.00001 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.14 87.76 96.3 0.096 0.116 0.995 9.43 2.89 30980 31.658
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.39 97.6 0.437 0.529 0.81 2.71 2.9
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 PREVIOUSLY SOLVED STRUCTURE 2.14 87.76 29411 1569 96.34 0.2255 0.2237 0.2284 0.2582 0.2613 RANDOM 27.536
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] -0.45 -0.43 1.31 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.777 r_dihedral_angle_3_deg 13.57 r_dihedral_angle_4_deg 12.508 r_dihedral_angle_1_deg 5.354 r_angle_other_deg 2.625 r_angle_refined_deg 1.458 r_chiral_restr 0.073 r_gen_planes_other 0.008 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.777 r_dihedral_angle_3_deg 13.57 r_dihedral_angle_4_deg 12.508 r_dihedral_angle_1_deg 5.354 r_angle_other_deg 2.625 r_angle_refined_deg 1.458 r_chiral_restr 0.073 r_gen_planes_other 0.008 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4378 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 121
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction MOLREP phasing