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Crystal structure of 3-ketoacyl-(acyl-carrier-protein) reductase (FabG) from Vibrio cholerae
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OP4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 289 0.1M Tris pH9, 5% Tacsimate, 2.6M Ammonium sulfate, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.14 42.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.939 α = 90 b = 63.939 β = 90 c = 190.146 γ = 120
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 315r Mirrors 2011-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2 25 99.8 0.061 0.061 18.9 4.6 29605 29605 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 100 0.404 0.404 2.9 4.5 1455
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 MOLECULAR REPLACEMENT THROUGHOUT 3OP4 2 25 27004 27004 1430 95.94 0.14091 0.14091 0.13885 0.1443 0.17922 0.176 RANDOM 34.23
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] -6.23 -6.23 12.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.783 r_dihedral_angle_4_deg 18.507 r_dihedral_angle_3_deg 13.01 r_dihedral_angle_1_deg 5.658 r_scangle_it 2.931 r_angle_other_deg 2.423 r_scbond_it 1.843 r_angle_refined_deg 1.259 r_mcangle_it 0.995 r_mcbond_it 0.602
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.783 r_dihedral_angle_4_deg 18.507 r_dihedral_angle_3_deg 13.01 r_dihedral_angle_1_deg 5.658 r_scangle_it 2.931 r_angle_other_deg 2.423 r_scbond_it 1.843 r_angle_refined_deg 1.259 r_mcangle_it 0.995 r_mcbond_it 0.602 r_chiral_restr 0.085 r_mcbond_other 0.084 r_bond_refined_d 0.013 r_bond_other_d 0.007 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3607 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 115
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement Coot model building HKL-3000 data reduction HKL-3000 data scaling