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Crystal structure of native catalase-peroxidase KatG at pH7.5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MWV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 16-20% MPD, 0.1 M sodium citrate pH 7.6
Crystal Properties Matthews coefficient Solvent content 3.17 61.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.343 α = 90 b = 114.851 β = 90 c = 174.86 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 MARRESEARCH 2005-02-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM16 1.00801 ESRF BM16
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.05 96 99.3 0.117 13 4.4 119529
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.1 94.4 0.481 2.2 3.4 7891
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 1MWV 2.05 20 119529 6350 99.11 0.1505 0.1487 0.1607 0.1843 0.1934 RANDOM 27.088
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] -0.1 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.015 r_dihedral_angle_4_deg 15.383 r_dihedral_angle_3_deg 13.495 r_dihedral_angle_1_deg 5.918 r_mcangle_it 2.535 r_angle_refined_deg 2.141 r_mcbond_it 1.81 r_mcbond_other 1.803 r_angle_other_deg 1.142 r_chiral_restr 0.142
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.015 r_dihedral_angle_4_deg 15.383 r_dihedral_angle_3_deg 13.495 r_dihedral_angle_1_deg 5.918 r_mcangle_it 2.535 r_angle_refined_deg 2.141 r_mcbond_it 1.81 r_mcbond_other 1.803 r_angle_other_deg 1.142 r_chiral_restr 0.142 r_bond_refined_d 0.025 r_gen_planes_refined 0.014 r_gen_planes_other 0.01 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11014 Nucleic Acid Atoms Solvent Atoms 1348 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling AMoRE phasing