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Crystal structure of the D141A variant of B. pseudomallei KatGin complex with isoniazid
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% PEG 4000, 20% MPD, 0.1 M sodium citrate pH 5.6
Crystal Properties Matthews coefficient Solvent content 3.17 61.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.64 α = 90 b = 114.64 β = 90 c = 174.99 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 PIXEL PSI PILATUS 6M 2013-01-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97949 ALBA XALOC
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 1.88 95.89 98.4 0.063 14.3 3.6 155033
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 1.88 1.97 87.8 0.5623 1.57 2.91 7897
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 1.88 20 155033 8160 98.42 0.1418 0.1403 0.153 0.1703 0.1793 RANDOM 28.742
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 0.22 -0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.778 r_dihedral_angle_4_deg 17.149 r_dihedral_angle_3_deg 13.077 r_dihedral_angle_1_deg 6.074 r_mcangle_it 3.018 r_angle_refined_deg 2.296 r_mcbond_it 2.234 r_mcbond_other 2.231 r_angle_other_deg 1.337 r_chiral_restr 0.161
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.778 r_dihedral_angle_4_deg 17.149 r_dihedral_angle_3_deg 13.077 r_dihedral_angle_1_deg 6.074 r_mcangle_it 3.018 r_angle_refined_deg 2.296 r_mcbond_it 2.234 r_mcbond_other 2.231 r_angle_other_deg 1.337 r_chiral_restr 0.161 r_bond_refined_d 0.029 r_gen_planes_refined 0.016 r_gen_planes_other 0.01 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11004 Nucleic Acid Atoms Solvent Atoms 1159 Heterogen Atoms 204
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling MOLREP phasing