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The crystal structure of the P212121 form of bovine liver catalase previously characterized by electron microscopy
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BLC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 sitting drop vapor diffusion using polymer-induced heteronucleation 6.8 273 0.05 M sodium phosphate pH 6.8, 12% PEG 4000, sitting drop vapor diffusion using polymer-induced heteronucleation, temperature 273K
Crystal Properties Matthews coefficient Solvent content 2.31 46.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.652 α = 90 b = 173.744 β = 90 c = 186.325 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 CCD MARMOSAIC 300 mm CCD mirrors 2009-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.12713 APS 21-ID-D
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 2.7 50 96.3 0.136 15.73 9.6 60233 60233 39.4
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 2.7 2.75 86.4 0.404 3.95 8.1 2672
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 4blc 2.69 39.98 57155 57155 3041 96.1 0.20548 0.20539 0.20347 0.2081 0.2411 0.2417 RANDOM 27.693
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] 0.05 -0.71 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.609 r_dihedral_angle_4_deg 20.759 r_dihedral_angle_3_deg 16.893 r_dihedral_angle_1_deg 6.245 r_scangle_it 2.342 r_angle_refined_deg 1.442 r_scbond_it 1.37 r_mcangle_it 0.855 r_mcbond_it 0.423 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.609 r_dihedral_angle_4_deg 20.759 r_dihedral_angle_3_deg 16.893 r_dihedral_angle_1_deg 6.245 r_scangle_it 2.342 r_angle_refined_deg 1.442 r_scbond_it 1.37 r_mcangle_it 0.855 r_mcbond_it 0.423 r_chiral_restr 0.104 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16068 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms 364
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling