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Structure of thermolysin solved by SAD from data collected by Direct Data Collection (DDC) using the ESRF RoboDiff goniometer
Crystallization Crystal Properties Matthews coefficient Solvent content 2.38 48.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.1 α = 90 b = 93.1 β = 90 c = 130.302 γ = 120
Symmetry Space Group P 61 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 PIXEL DECTRIS PILATUS3 2M BE CRL 2016-01-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 ESRF MASSIF-1
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 1.45 46.6 92.5 0.08 27.3 34.1 55022 3
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 1.45 1.5 61.4 0.65 1.3 18.8
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 SAD THROUGHOUT NONE 1.45 80.63 50986 2694 90.15 0.14576 0.14396 0.1559 0.18031 0.1891 RANDOM 19.854
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] -0.43 -0.22 -0.43 1.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.008 r_sphericity_free 29.216 r_dihedral_angle_4_deg 18.473 r_dihedral_angle_3_deg 12.66 r_sphericity_bonded 9.283 r_dihedral_angle_1_deg 5.686 r_scbond_it 2.349 r_rigid_bond_restr 2.227 r_mcangle_it 2.021 r_mcbond_it 1.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.008 r_sphericity_free 29.216 r_dihedral_angle_4_deg 18.473 r_dihedral_angle_3_deg 12.66 r_sphericity_bonded 9.283 r_dihedral_angle_1_deg 5.686 r_scbond_it 2.349 r_rigid_bond_restr 2.227 r_mcangle_it 2.021 r_mcbond_it 1.68 r_mcbond_other 1.678 r_angle_refined_deg 1.506 r_angle_other_deg 1.041 r_chiral_restr 0.106 r_bond_refined_d 0.014 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2414 Nucleic Acid Atoms Solvent Atoms 283 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling SHELXDE phasing