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VIM-7 with Oxidised. Structural and computational investigations of VIM-7: Insights into the substrate specificity of VIM metallo-beta- lactamases
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 22.5-23.5% POLYETHYLENE GLYCOL MONOMETHYL ETHERS (PEG MME) 2K, 0.1 M CALCIUM ACETATE, 0.1 M SODIUM CACODYLATE PH 5.0, 8 MM BETA-MERCAPTOETHANOL
Crystal Properties Matthews coefficient Solvent content 1.97 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.138 α = 90 b = 70.138 β = 90 c = 47.529 γ = 90
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 ADSC CCD 2010-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.33 50 99.8 0.11 8.1 4.5 10017 8.1 33.2
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 2.33 2.46 99.5 0.5 2.2 3.9
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 OTHER THROUGHOUT NONE 2.33 25 8997 1000 99.73 0.19338 0.18673 0.1882 0.25405 0.2473 RANDOM 19.847
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] -0.95 -0.95 1.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.745 r_dihedral_angle_3_deg 13.508 r_dihedral_angle_4_deg 12.512 r_dihedral_angle_1_deg 6.317 r_scangle_it 2.188 r_scbond_it 1.239 r_angle_refined_deg 1.106 r_mcangle_it 0.925 r_angle_other_deg 0.858 r_mcbond_it 0.491
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.745 r_dihedral_angle_3_deg 13.508 r_dihedral_angle_4_deg 12.512 r_dihedral_angle_1_deg 6.317 r_scangle_it 2.188 r_scbond_it 1.239 r_angle_refined_deg 1.106 r_mcangle_it 0.925 r_angle_other_deg 0.858 r_mcbond_it 0.491 r_chiral_restr 0.07 r_mcbond_other 0.067 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1698 Nucleic Acid Atoms Solvent Atoms 68 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling