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High Resolution Structure of Acinetobacter baumannii beta-lactamase OXA-51
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 3% w/v PGA-LM, 20% v/v PEG 500 MME, 0.1 M ammonium sulfate, 0.3 M sodium formate, and 0.1 M sodium acetate, pH 5.0
Crystal Properties Matthews coefficient Solvent content 3.05 59.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.549 α = 90 b = 91.48 β = 90 c = 169.938 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 300 mm CCD 2014-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.08 APS 21-ID-D
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 1.61 42.31 99.4 0.05 34.18 6.8 176472
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.61 1.65 100 0.748 0.783 2.51 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.61 42.31 167336 8759 99.37 0.11779 0.11567 0.1158 0.15796 0.158 RANDOM 23.379
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] -0.22 -0.05 0.27
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 47.888 r_dihedral_angle_2_deg 38.577 r_sphericity_bonded 21.526 r_dihedral_angle_3_deg 12.302 r_dihedral_angle_4_deg 10.506 r_rigid_bond_restr 7.221 r_long_range_B_refined 6.848 r_long_range_B_other 6.846 r_scangle_other 6.245 r_dihedral_angle_1_deg 5.781
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 47.888 r_dihedral_angle_2_deg 38.577 r_sphericity_bonded 21.526 r_dihedral_angle_3_deg 12.302 r_dihedral_angle_4_deg 10.506 r_rigid_bond_restr 7.221 r_long_range_B_refined 6.848 r_long_range_B_other 6.846 r_scangle_other 6.245 r_dihedral_angle_1_deg 5.781 r_scbond_it 5.541 r_scbond_other 5.541 r_mcangle_it 4.213 r_mcangle_other 4.213 r_mcbond_it 3.747 r_mcbond_other 3.729 r_angle_refined_deg 1.619 r_angle_other_deg 1.01 r_chiral_restr 0.121 r_gen_planes_refined 0.015 r_bond_refined_d 0.014 r_gen_planes_other 0.006 r_bond_other_d 0.001 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7549 Nucleic Acid Atoms Solvent Atoms 1124 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data scaling PHASER phasing