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The crystal structure of catalase-peroxidase, KatG, from Synechococcus PCC7942
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 277 Sodium formate, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.74 67.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.744 α = 90 b = 108.744 β = 90 c = 202.888 γ = 90
Symmetry Space Group P 41 21 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 CCD ADSC QUANTUM 315 2013-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.19 35.95 99.6 120001 63054
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.19 2.27 95.9 0.155 0.286 3.5 6.6 11518
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 THROUGHOUT 2.2 34.39 59197 3158 99.85 0.16956 0.16765 0.1731 0.20602 0.2082 RANDOM 36.549
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 0.05 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_4_deg 18.991 r_dihedral_angle_3_deg 16.976 r_long_range_B_refined 6.941 r_long_range_B_other 6.913 r_dihedral_angle_1_deg 6.498 r_scangle_other 5.592 r_mcangle_other 4.307 r_mcangle_it 4.305 r_scbond_other 3.944
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_4_deg 18.991 r_dihedral_angle_3_deg 16.976 r_long_range_B_refined 6.941 r_long_range_B_other 6.913 r_dihedral_angle_1_deg 6.498 r_scangle_other 5.592 r_mcangle_other 4.307 r_mcangle_it 4.305 r_scbond_other 3.944 r_scbond_it 3.943 r_mcbond_it 3.158 r_mcbond_other 3.137 r_angle_refined_deg 2.038 r_angle_other_deg 1.007 r_chiral_restr 0.16 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_gen_planes_other 0.007 r_bond_other_d 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5582 Nucleic Acid Atoms Solvent Atoms 522 Heterogen Atoms 45
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling