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The Crystal Structure of BTK from Biortus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PJ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M LiCl2, 0.1M Tris pH8.0, 20% PEG6000
Crystal Properties Matthews coefficient Solvent content 2.27 45.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.686 α = 90 b = 102.995 β = 90 c = 117.543 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 2023-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.978530 SSRF BL18U1
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 2.25 34.33 99.9 0.01 10.9 7.7 27721
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.32 0.97
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-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.25 32.976 27664 1368 99.884 0.211 0.2087 0.2143 0.2655 0.2639 54.582
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] 0.323 -1.895 1.572
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.806 r_dihedral_angle_3_deg 12.473 r_lrange_it 6.24 r_lrange_other 6.213 r_dihedral_angle_1_deg 5.943 r_dihedral_angle_2_deg 5.526 r_scangle_it 4.096 r_scangle_other 4.095 r_mcangle_it 3.781 r_mcangle_other 3.781
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.806 r_dihedral_angle_3_deg 12.473 r_lrange_it 6.24 r_lrange_other 6.213 r_dihedral_angle_1_deg 5.943 r_dihedral_angle_2_deg 5.526 r_scangle_it 4.096 r_scangle_other 4.095 r_mcangle_it 3.781 r_mcangle_other 3.781 r_scbond_it 2.425 r_scbond_other 2.424 r_mcbond_it 2.335 r_mcbond_other 2.334 r_angle_refined_deg 0.821 r_angle_other_deg 0.299 r_nbd_refined 0.188 r_nbtor_refined 0.178 r_symmetry_nbd_other 0.173 r_xyhbond_nbd_refined 0.167 r_symmetry_xyhbond_nbd_refined 0.163 r_nbd_other 0.113 r_symmetry_nbd_refined 0.112 r_ncsr_local_group_1 0.102 r_symmetry_xyhbond_nbd_other 0.088 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.043 r_chiral_restr_other 0.009 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4173 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing