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Crystal structure of catalase-peroxidase KATG of burkholderia pseudomallei treated with INH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ITK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 16-20% PEG 4K, 20% MPD, 0.1 M SODIUM CITRATE, PH 5.6
Crystal Properties Matthews coefficient Solvent content 3.28 62.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.94 α = 90 b = 115.62 β = 90 c = 175.2 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 IMAGE PLATE MARRESEARCH 2002-05-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.843 EMBL/DESY, HAMBURG BW7B
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 1.7 96.5 99 0.073 13.5 3.3 199550
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 1.7 1.73 99.9 0.58 2.7 3.61 11076
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 1ITK 1.7 18 199550 22115 98.9 0.148 0.145 0.1588 0.176 0.1862 RANDOM 21.71
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] 0.67 -1.22 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.028 r_dihedral_angle_4_deg 17.164 r_dihedral_angle_3_deg 12.718 r_dihedral_angle_1_deg 5.79 r_angle_refined_deg 2.689 r_mcangle_it 2.649 r_mcbond_it 1.855 r_mcbond_other 1.854 r_angle_other_deg 1.202 r_chiral_restr 0.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.028 r_dihedral_angle_4_deg 17.164 r_dihedral_angle_3_deg 12.718 r_dihedral_angle_1_deg 5.79 r_angle_refined_deg 2.689 r_mcangle_it 2.649 r_mcbond_it 1.855 r_mcbond_other 1.854 r_angle_other_deg 1.202 r_chiral_restr 0.164 r_bond_refined_d 0.03 r_gen_planes_refined 0.016 r_gen_planes_other 0.005 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_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11010 Nucleic Acid Atoms Solvent Atoms 1878 Heterogen Atoms 120
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing