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Crystal structure of Klebsiella pneumoniae Enoyl-Acyl Carrier Protein Reductase (FabI) in complex with Triclosan
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.7 293 0.1M Sodium Citrate pH 5.7, 0.1M Ammonium Sulphate, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.3 46.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.572 α = 90 b = 124.712 β = 110.38 c = 70.743 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 DECTRIS PILATUS 6M 2023-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM07 0.97951 ESRF BM07
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.09 66.32 95.2 0.119 0.141 0.075 0.997 10.6 6.7 57229
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.09 2.2 92.2 0.663 0.779 0.445 0.884 2.4 5.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.09 66.32 54418 2782 95.12 0.16936 0.16607 0.23389 0.2208 RANDOM 38.805
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] -0.62 3.7 -4.89 2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.573 r_dihedral_angle_4_deg 15.693 r_dihedral_angle_3_deg 14.4 r_dihedral_angle_1_deg 7.503 r_long_range_B_refined 6.421 r_long_range_B_other 6.405 r_scangle_other 4.508 r_mcangle_other 3.5 r_mcangle_it 3.498 r_scbond_it 3.061
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.573 r_dihedral_angle_4_deg 15.693 r_dihedral_angle_3_deg 14.4 r_dihedral_angle_1_deg 7.503 r_long_range_B_refined 6.421 r_long_range_B_other 6.405 r_scangle_other 4.508 r_mcangle_other 3.5 r_mcangle_it 3.498 r_scbond_it 3.061 r_scbond_other 3.06 r_mcbond_it 2.53 r_mcbond_other 2.523 r_angle_refined_deg 1.494 r_angle_other_deg 1.293 r_chiral_restr 0.07 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7673 Nucleic Acid Atoms Solvent Atoms 749 Heterogen Atoms 259
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling MOLREP phasing