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Crystal Structure Analysis of Aspergillus fumigatus alkaline protease
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8GKO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 289 polyethyleneglycol 550 monomethylether, polyethyleneglycol 20,000, MES/Imidazole
Crystal Properties Matthews coefficient Solvent content 1.96 41.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.092 α = 90 b = 75.218 β = 101.39 c = 87.929 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 6M Flat Si Rh coated M0, Kirkpatrick-Baez flat bent Si M1 & M2 2021-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97946 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.55 86.197 97.3 0.064 0.074 0.037 10.9 3.9 91847 91847
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.63 95.6 0.945 0.945 1.099 0.553 0.8 3.8
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 (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 1.55 30.2 87267 4546 97.08 0.1556 0.1529 0.1531 0.2065 0.2065 RANDOM 24.11
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] 0.5 -0.09 0.08 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.779 r_sphericity_free 22.578 r_dihedral_angle_4_deg 18.082 r_dihedral_angle_3_deg 13.73 r_sphericity_bonded 11.662 r_dihedral_angle_1_deg 6.189 r_rigid_bond_restr 3.309 r_angle_refined_deg 1.515 r_chiral_restr 0.121 r_bond_refined_d 0.013
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.779 r_sphericity_free 22.578 r_dihedral_angle_4_deg 18.082 r_dihedral_angle_3_deg 13.73 r_sphericity_bonded 11.662 r_dihedral_angle_1_deg 6.189 r_rigid_bond_restr 3.309 r_angle_refined_deg 1.515 r_chiral_restr 0.121 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5542 Nucleic Acid Atoms Solvent Atoms 414 Heterogen Atoms 68
Software Software Software Name Purpose XDS data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing