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OXA-24/40 in Complex with Boronic Acid BA8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PAE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 100 mM TRIS-HCl, pH 8.5, 2.0 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 4.15 70.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.974 α = 90 b = 102.974 β = 90 c = 86.73 γ = 90
Symmetry Space Group P 41 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 PIXEL DECTRIS EIGER X 9M 2016-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.12713 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 1.75 102.97 95 0.087 12 7.3 45159
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 3PAE 1.75 72.81 42819 2308 94.92 0.1792 0.17777 0.1857 0.20735 0.2146 RANDOM 32.97
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] -1.94 -1.94 3.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.904 r_dihedral_angle_4_deg 19.002 r_dihedral_angle_3_deg 12.496 r_long_range_B_refined 8.146 r_dihedral_angle_1_deg 8.118 r_long_range_B_other 8.065 r_scangle_other 6.692 r_scbond_it 4.275 r_scbond_other 4.273 r_mcangle_other 4.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.904 r_dihedral_angle_4_deg 19.002 r_dihedral_angle_3_deg 12.496 r_long_range_B_refined 8.146 r_dihedral_angle_1_deg 8.118 r_long_range_B_other 8.065 r_scangle_other 6.692 r_scbond_it 4.275 r_scbond_other 4.273 r_mcangle_other 4.108 r_mcangle_it 4.1 r_mcbond_it 2.822 r_mcbond_other 2.788 r_angle_refined_deg 1.849 r_angle_other_deg 0.965 r_chiral_restr 0.154 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1925 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing