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Co-crystal structure of Chaetomium glucosidase with compound 15
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7T6W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 297 0.1 Bis Tris pH 6.5, 1.6-2.0 M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.93 58.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.875 α = 90 b = 179.332 β = 90 c = 179.833 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 PIXEL DECTRIS PILATUS 6M 2021-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9794 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.29 46.83 99.36 0.11 0.03868 0.998 9.75 8.9 97615
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.29 2.375 94.6 0.9202 0.3355 0.797 1.61 8.4
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 7T6W 2.29 46.83 92672 4944 99.38 0.1905 0.1881 0.1931 0.2344 0.2365 RANDOM 38.904
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] 2.25 0.11 -2.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.8 r_dihedral_angle_4_deg 18.13 r_dihedral_angle_3_deg 16.115 r_dihedral_angle_1_deg 7.36 r_angle_refined_deg 1.743 r_angle_other_deg 1.363 r_chiral_restr 0.085 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.8 r_dihedral_angle_4_deg 18.13 r_dihedral_angle_3_deg 16.115 r_dihedral_angle_1_deg 7.36 r_angle_refined_deg 1.743 r_angle_other_deg 1.363 r_chiral_restr 0.085 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12149 Nucleic Acid Atoms Solvent Atoms 409 Heterogen Atoms 180
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHASER phasing