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AmpC beta-lactamase with bound Phthalamide inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L2S PDB entry 1L2S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.7 291 pH 8.7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.53 51.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.721 α = 90 b = 76.842 β = 115.8 c = 97.495 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 2006-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 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 1.86 50 99.5 0.056 10.7 5.5 65664
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) 1.86 1.93 95.5 0.539 4.4 6237
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB entry 1L2S 1.86 30 65652 3326 99.46 0.179 0.178 0.1823 0.212 0.2157 RANDOM 21.599
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] 0.08 0.07 1.11 -1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.251 r_dihedral_angle_4_deg 15.958 r_dihedral_angle_3_deg 13.006 r_dihedral_angle_1_deg 6.479 r_scangle_it 2.502 r_scbond_it 1.794 r_angle_refined_deg 1.404 r_mcangle_it 1.123 r_mcbond_it 0.997 r_angle_other_deg 0.899
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.251 r_dihedral_angle_4_deg 15.958 r_dihedral_angle_3_deg 13.006 r_dihedral_angle_1_deg 6.479 r_scangle_it 2.502 r_scbond_it 1.794 r_angle_refined_deg 1.404 r_mcangle_it 1.123 r_mcbond_it 0.997 r_angle_other_deg 0.899 r_symmetry_vdw_other 0.299 r_symmetry_vdw_refined 0.253 r_nbd_refined 0.201 r_nbd_other 0.183 r_nbtor_refined 0.176 r_mcbond_other 0.176 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.152 r_xyhbond_nbd_other 0.085 r_nbtor_other 0.084 r_chiral_restr 0.078 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5709 Nucleic Acid Atoms Solvent Atoms 570 Heterogen Atoms 57
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction