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Structure of AmpC beta-lactamase with cross-linked active site after exposure to small molecule inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.7 291 microseeding used, pH 8.7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.52 51.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.02 α = 90 b = 76.434 β = 116.07 c = 97.786 γ = 90
Symmetry Space Group C 1 2 1
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 QUANTUM 210 2006-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1 ALS 8.3.1
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 1.8 50 99.3 0.057 14.2 2.1 73355 72841
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) 1.8 1.86 99.4 0.347 2.1 2.1 7306
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 1.8 50 69166 3673 98.98 0.16226 0.16039 0.1599 0.19712 0.1959 RANDOM 18.244
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] 0.52 0.18 -0.01 -0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.078 r_dihedral_angle_4_deg 15.492 r_dihedral_angle_3_deg 13.553 r_dihedral_angle_1_deg 6.173 r_scangle_it 3.688 r_scbond_it 2.554 r_angle_refined_deg 1.43 r_mcangle_it 1.424 r_mcbond_it 1.233 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.078 r_dihedral_angle_4_deg 15.492 r_dihedral_angle_3_deg 13.553 r_dihedral_angle_1_deg 6.173 r_scangle_it 3.688 r_scbond_it 2.554 r_angle_refined_deg 1.43 r_mcangle_it 1.424 r_mcbond_it 1.233 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.234 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.168 r_symmetry_hbond_refined 0.148 r_chiral_restr 0.102 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5803 Nucleic Acid Atoms Solvent Atoms 903 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing