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Crystal structure of native catalase-peroxidase KatG at pH8.0
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, pH 5.6 0.1 M sodium citrate
Crystal Properties Matthews coefficient Solvent content 3.21 61.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.778 α = 90 b = 115.981 β = 90 c = 174.844 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 2005-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.97951 ESRF BM30A
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 1.9 96.65 99.9 0.087 16.4 4.1 144966
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 1.9 1.94 0.438 2.8 3.1 10604
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 1.9 20 144966 15966 99.76 0.1418 0.1385 0.1526 0.1712 0.1804 RANDOM 22.676
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] -0.01 0.09 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.102 r_dihedral_angle_4_deg 16.024 r_dihedral_angle_3_deg 13.331 r_dihedral_angle_1_deg 5.941 r_mcangle_it 2.401 r_angle_refined_deg 2.269 r_mcbond_it 1.714 r_mcbond_other 1.709 r_angle_other_deg 1.188 r_chiral_restr 0.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.102 r_dihedral_angle_4_deg 16.024 r_dihedral_angle_3_deg 13.331 r_dihedral_angle_1_deg 5.941 r_mcangle_it 2.401 r_angle_refined_deg 2.269 r_mcbond_it 1.714 r_mcbond_other 1.709 r_angle_other_deg 1.188 r_chiral_restr 0.164 r_bond_refined_d 0.029 r_gen_planes_refined 0.016 r_gen_planes_other 0.011 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11014 Nucleic Acid Atoms Solvent Atoms 1553 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling AMoRE phasing