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crystal structure of beta-lactamse PenP_E166S in complex with meropenem
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 289 Tris, PEG 3350, ammonium acetate, pH 8.0, vapor diffusion, hanging drop, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.12 41.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.26 α = 90 b = 90.96 β = 104.24 c = 66.2 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 291 IMAGE PLATE RIGAKU RAXIS IV++ 2013-07-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.3 45.48 99.8 22157 22119 2 2
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 2.3 37.1 20987 1131 99.91 0.18354 0.18039 0.1876 0.24187 0.2451 RANDOM 13.919
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] 0.01 0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.646 r_dihedral_angle_4_deg 16.99 r_dihedral_angle_3_deg 14.221 r_dihedral_angle_1_deg 6.668 r_angle_refined_deg 1.996 r_mcangle_it 1.84 r_scbond_it 1.805 r_mcbond_it 1.097 r_mcbond_other 1.089 r_angle_other_deg 0.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.646 r_dihedral_angle_4_deg 16.99 r_dihedral_angle_3_deg 14.221 r_dihedral_angle_1_deg 6.668 r_angle_refined_deg 1.996 r_mcangle_it 1.84 r_scbond_it 1.805 r_mcbond_it 1.097 r_mcbond_other 1.089 r_angle_other_deg 0.937 r_chiral_restr 0.244 r_bond_refined_d 0.015 r_bond_other_d 0.008 r_gen_planes_refined 0.006 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_it 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 4000 Nucleic Acid Atoms Solvent Atoms 314 Heterogen Atoms 52
Software Software Software Name Purpose d*TREK data scaling SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction d*TREK data reduction PHASES phasing