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OXA-48 in complex with FPI-1602
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HBR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.005 M CoCl2, 0.005 M CdCl2, 0.005 M MgCl2, 0.005 M NiCl2, 0.1 M HEPES pH 7.5, 12% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.62 53.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.11 α = 90 b = 75.75 β = 90 c = 106.65 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 RAYONIX MX-300 2014-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 1.00 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.09 47.18 99.7 21.2 7.3 35720
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 3HBR 2.09 47.18 33810 1851 99.73 0.16956 0.1671 0.1785 0.2157 0.2162 RANDOM 35.494
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] -2.41 2.5 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.791 r_dihedral_angle_4_deg 20.409 r_dihedral_angle_3_deg 15.106 r_long_range_B_refined 7.597 r_long_range_B_other 7.551 r_dihedral_angle_1_deg 6.339 r_scangle_other 6.16 r_scbond_it 4.466 r_scbond_other 4.465 r_mcangle_it 4.058
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.791 r_dihedral_angle_4_deg 20.409 r_dihedral_angle_3_deg 15.106 r_long_range_B_refined 7.597 r_long_range_B_other 7.551 r_dihedral_angle_1_deg 6.339 r_scangle_other 6.16 r_scbond_it 4.466 r_scbond_other 4.465 r_mcangle_it 4.058 r_mcangle_other 4.058 r_mcbond_it 3.187 r_mcbond_other 3.17 r_angle_refined_deg 1.585 r_angle_other_deg 0.769 r_chiral_restr 0.097 r_gen_planes_refined 0.011 r_bond_refined_d 0.009 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 3978 Nucleic Acid Atoms Solvent Atoms 295 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing