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Structure of KatE1 catalase from Acinetobacter sp. Ver3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ISA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M sodium HEPES pH 7.5, 0.8 M Na-K tartrate
Crystal Properties Matthews coefficient Solvent content 4.39 71.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.538 α = 90 b = 112.538 β = 90 c = 314.634 γ = 90
Symmetry Space Group I 41 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 EIGER X 9M 2018-02-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9786 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.15 49.75 99.82 0.1783 0.998 11.32 14.6 55226
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.227 0.85
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 2ISA 2.15 49.75 52559 2662 99.84 0.1758 0.1742 0.1883 0.2089 0.2168 RANDOM 49.741
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] 3.38 3.38 -6.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.522 r_dihedral_angle_4_deg 17.57 r_dihedral_angle_3_deg 15.492 r_dihedral_angle_1_deg 7.449 r_angle_refined_deg 1.929 r_angle_other_deg 1.374 r_chiral_restr 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.522 r_dihedral_angle_4_deg 17.57 r_dihedral_angle_3_deg 15.492 r_dihedral_angle_1_deg 7.449 r_angle_refined_deg 1.929 r_angle_other_deg 1.374 r_chiral_restr 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4005 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 95
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling PHASER phasing