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Beta-ketoacyl-ACP synthase III -2 (FabH2) (C113A) from Vibrio Cholerae cocrystallized with octanoyl-CoA: hydrolzed ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WZU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 289 0.2 M ammonium phosphate, 20% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.39 48.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.67 α = 90 b = 61.242 β = 94.67 c = 71.524 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 CCD MARMOSAIC 225 mm CCD Beryllium Lenses 2014-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.979 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 27 96.7 0.1 0.121 0.067 6.9 2.9 48065
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 2 2.03 96.9 0.413 2.9
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4WZU 2 27 45559 2360 96.64 0.19521 0.19386 0.22095 0.209 RANDOM 24.408
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] 0.26 -0.77 -0.57 0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.635 r_dihedral_angle_4_deg 12.805 r_dihedral_angle_3_deg 11.511 r_dihedral_angle_1_deg 5.959 r_long_range_B_refined 4.978 r_long_range_B_other 4.864 r_angle_refined_deg 1.339 r_angle_other_deg 0.987 r_scangle_other 0.716 r_mcangle_it 0.594
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.635 r_dihedral_angle_4_deg 12.805 r_dihedral_angle_3_deg 11.511 r_dihedral_angle_1_deg 5.959 r_long_range_B_refined 4.978 r_long_range_B_other 4.864 r_angle_refined_deg 1.339 r_angle_other_deg 0.987 r_scangle_other 0.716 r_mcangle_it 0.594 r_mcangle_other 0.594 r_scbond_it 0.422 r_scbond_other 0.422 r_mcbond_it 0.332 r_mcbond_other 0.332 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5283 Nucleic Acid Atoms Solvent Atoms 379 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement HKL-3000 data collection HKL-3000 data scaling MOLREP phasing PDB_EXTRACT data extraction HKL-3000 data reduction