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Crystal structure of the catalase-peroxidase (KatG) and S315T mutant from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MWV PDB ENTRY 1MWV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 6% PEG4000, 0.1M NA ACETATE, PH4.6, 0.17MM N-DODECYL-B-D-MALTOSIDE, PROTEIN CONCENTRATION OF 16MG/ML, pH 4.60
Crystal Properties Matthews coefficient Solvent content 2.7 54.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 150.104 α = 90 b = 150.104 β = 90 c = 153.718 γ = 90
Symmetry Space Group P 42 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 CCD MIRRORS 2003-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B APS 14-ID-B
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 1.9 50 99 0.08 26.2 7 105049
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 50 96.7 0.35 4.6 4.9
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1MWV 2 20 110889 5847 99 0.2 0.199 0.225 RANDOM 23.93
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] -0.87 -0.87 1.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.42 r_dihedral_angle_4_deg 16.151 r_dihedral_angle_3_deg 15.032 r_dihedral_angle_1_deg 5.02 r_scangle_it 1.576 r_angle_refined_deg 1.056 r_scbond_it 0.968 r_mcangle_it 0.703 r_mcbond_it 0.404 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.42 r_dihedral_angle_4_deg 16.151 r_dihedral_angle_3_deg 15.032 r_dihedral_angle_1_deg 5.02 r_scangle_it 1.576 r_angle_refined_deg 1.056 r_scbond_it 0.968 r_mcangle_it 0.703 r_mcbond_it 0.404 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.196 r_symmetry_hbond_refined 0.134 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.078 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other 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 11032 Nucleic Acid Atoms Solvent Atoms 938 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing CNS phasing XTALVIEW phasing