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Crystal Structure of the Zinc Carbapenemase CPHA in Complex with the Inhibitor D-Captopril
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1X8G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 281 PEG, AS, PH 6.50, VAPOR DIFFUSION, HANGING DROP, temperature 281K
Crystal Properties Matthews coefficient Solvent content 2.5 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.001 α = 90 b = 100.99 β = 90 c = 116.819 γ = 90
Symmetry Space Group C 2 2 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 MARRESEARCH 2003-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.93100 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.66 58.41 99.1 0.081 0.081 17.1 5.7 30270 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.66 1.75 94.3 0.222 0.222 4.4 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1X8G 1.66 50 2 2 30270 28699 1530 99.08 0.15 0.14902 0.14791 0.1607 0.17 0.1794 RANDOM 12.02
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] 0.03 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.457 r_dihedral_angle_4_deg 16.396 r_dihedral_angle_3_deg 11.359 r_dihedral_angle_1_deg 6.014 r_scangle_it 3.067 r_scbond_it 1.956 r_angle_refined_deg 1.283 r_mcangle_it 1.141 r_angle_other_deg 0.896 r_mcbond_it 0.691
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.457 r_dihedral_angle_4_deg 16.396 r_dihedral_angle_3_deg 11.359 r_dihedral_angle_1_deg 6.014 r_scangle_it 3.067 r_scbond_it 1.956 r_angle_refined_deg 1.283 r_mcangle_it 1.141 r_angle_other_deg 0.896 r_mcbond_it 0.691 r_nbd_refined 0.364 r_symmetry_vdw_other 0.317 r_nbd_other 0.196 r_nbtor_refined 0.181 r_symmetry_hbond_refined 0.179 r_xyhbond_nbd_refined 0.158 r_mcbond_other 0.157 r_symmetry_vdw_refined 0.097 r_nbtor_other 0.084 r_chiral_restr 0.071 r_metal_ion_refined 0.047 r_bond_refined_d 0.01 r_bond_other_d 0.008 r_gen_planes_refined 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1758 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 47
Software Software Software Name Purpose CCP4 model building REFMAC refinement MAR345dtb data collection MOSFLM data reduction SCALA data scaling CCP4 phasing