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Crystal structure of 3-oxoacyl-(acyl-carrier-protein) reductase (FabG) from Pseudomonas aeruginosa in complex with 1-(1-ethylbenzimidazol-2- yl)-3-(2-methoxyphenyl)urea at 1.9A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BNW PDB ENTRY 4BNW, LIGAND-FREE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 0.8 M SUCCINIC ACID PH 7.0, 1 MM 1-(1-ETHYLBENZIMIDAZOL-2-YL)-3-(2-METHOXYPHENYL)UREA, FINAL PROTEIN CONCENTRATION 5 MG/ML
Crystal Properties Matthews coefficient Solvent content 2.12 42.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.55 α = 90 b = 108.92 β = 90 c = 149.72 γ = 90
Symmetry Space Group P 21 21 21
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 CCD MIRRORS 2012-09-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.9 38.53 88.5 0.07 12.3 4.1 67510 -3 21.7
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 1.9 1.94 56 0.32 4.3 3.7
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 4BNW, LIGAND-FREE 1.9 38.56 63200 3363 87.29 0.23671 0.23498 0.24 0.26923 0.273 RANDOM 39.625
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] 5.22 -2.25 -2.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.376 r_dihedral_angle_4_deg 17.403 r_dihedral_angle_3_deg 14.49 r_dihedral_angle_1_deg 5.773 r_angle_refined_deg 1.693 r_angle_other_deg 1.475 r_chiral_restr 0.096 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d 0.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.376 r_dihedral_angle_4_deg 17.403 r_dihedral_angle_3_deg 14.49 r_dihedral_angle_1_deg 5.773 r_angle_refined_deg 1.693 r_angle_other_deg 1.475 r_chiral_restr 0.096 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d 0.009 r_gen_planes_other 0.007 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6942 Nucleic Acid Atoms Solvent Atoms 203 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing