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Crystal structure of Burkholderia pseudomallei KatG N240D variant
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 3.13 60.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.792 α = 90 b = 113.296 β = 90 c = 174.52 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 MARMOSAIC 225 mm CCD 2014-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.98 CLSI 08ID-1
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 1.75 174.52 98.3 0.069 15.1 3.9 197628
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 1.75 1.84 99.9 0.426 1.8 3.9 29084
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 1.75 48 187721 9907 98.35 0.1601 0.1585 0.1695 0.1897 0.1995 RANDOM 19.248
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] -0.25 1.29 -1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.428 r_dihedral_angle_4_deg 18.075 r_dihedral_angle_3_deg 12.939 r_dihedral_angle_1_deg 6.028 r_mcangle_it 2.295 r_angle_refined_deg 2.182 r_mcbond_it 1.514 r_mcbond_other 1.512 r_angle_other_deg 1.255 r_chiral_restr 0.149
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.428 r_dihedral_angle_4_deg 18.075 r_dihedral_angle_3_deg 12.939 r_dihedral_angle_1_deg 6.028 r_mcangle_it 2.295 r_angle_refined_deg 2.182 r_mcbond_it 1.514 r_mcbond_other 1.512 r_angle_other_deg 1.255 r_chiral_restr 0.149 r_bond_refined_d 0.026 r_gen_planes_refined 0.015 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 1632 Heterogen Atoms 139
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing