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AmpC beta-lactamase N289A mutant in complex with a boronic acid deacylation transition state analog compound SM3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PI4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.7 295 POTASSIUM PHOSPHATE BUFFER, pH 8.7, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.52 51.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.84 α = 90 b = 76.063 β = 115.85 c = 97.898 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 MARRESEARCH mirrors 2003-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 5ID-B 0.97014 APS 5ID-B
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 1.07 15 94.7 0.055 12.07 3.6 325964 325964 -3
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) 1.07 1.11 85.7 0.477 2.34 2.6 30545
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 AB INITIO FREE R 1PI4 1.07 15 319468 319468 6552 92.9 0.1334 0.1334 0.1334 0.1256 0.1635 0.1533 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 279 5291.28 6570.99
RMS Deviations Key Refinement Restraint Deviation s_zero_chiral_vol 0.113 s_non_zero_chiral_vol 0.112 s_approx_iso_adps 0.059 s_anti_bump_dis_restr 0.041 s_similar_adp_cmpnt 0.034 s_from_restr_planes 0.0307 s_angle_d 0.029 s_bond_d 0.013 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12639 Nucleic Acid Atoms Solvent Atoms 1173 Heterogen Atoms 74
Software Software Software Name Purpose XDS data scaling XDS data reduction SHELX model building SHELXL-97 refinement SHELX phasing