☰ Navigation Tabs
Crystal Structure of SME-1 E166A mutant in complex with imipenem
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DY6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 20% PEG 4000, 0.2M Lithium chloride
Crystal Properties Matthews coefficient Solvent content 1.92 35.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.847 α = 90 b = 50.915 β = 98.935 c = 60.835 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 100 PIXEL RIGAKU HyPix-6000HE 2024-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.2 25.3 99.8 0.996 13.7 7 11402
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.27 0.937
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.2 23.452 11402 534 99.642 0.203 0.1996 0.2012 0.2826 0.2851 21.38
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] -0.645 -1.659 1.216 -0.047
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.021 r_lrange_it 13.43 r_dihedral_angle_6_deg 13.259 r_dihedral_angle_2_deg 9.498 r_scangle_it 8.182 r_dihedral_angle_1_deg 7.183 r_mcangle_it 7.042 r_scbond_it 5.299 r_mcbond_it 4.397 r_rigid_bond_restr 3.413
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.021 r_lrange_it 13.43 r_dihedral_angle_6_deg 13.259 r_dihedral_angle_2_deg 9.498 r_scangle_it 8.182 r_dihedral_angle_1_deg 7.183 r_mcangle_it 7.042 r_scbond_it 5.299 r_mcbond_it 4.397 r_rigid_bond_restr 3.413 r_angle_refined_deg 1.67 r_symmetry_xyhbond_nbd_refined 0.324 r_nbtor_refined 0.305 r_symmetry_nbd_refined 0.23 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.203 r_chiral_restr 0.114 r_gen_planes_refined 0.007 r_bond_refined_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2054 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction CrysalisPro data scaling MOLREP phasing