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Structure of 3-ketoacyl-(acyl-carrier-protein)reductase (FabG) from Vibrio cholerae O1 complexed with NADP+ (space group P62)
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 pH9.0, 2.6M Ammonium Sulfate, 5% Tacsimate, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.12 41.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.776 α = 90 b = 63.776 β = 90 c = 190.18 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 1.95 50 99 0.08 0.063 26.4 4.4 31596 31596 -3 26.3
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 1.95 1.98 99.6 0.593 0.593 3.2 3.8 1606
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 1.95 50.01 29935 29935 1611 99.12 0.13377 0.13377 0.13255 0.1413 0.15568 0.1627 RANDOM 31.466
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] 11.1 11.1 -22.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.39 r_dihedral_angle_4_deg 15.212 r_dihedral_angle_3_deg 13.567 r_dihedral_angle_1_deg 5.54 r_scangle_it 2.429 r_scbond_it 1.476 r_angle_refined_deg 1.261 r_mcangle_it 0.89 r_angle_other_deg 0.857 r_mcbond_it 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.39 r_dihedral_angle_4_deg 15.212 r_dihedral_angle_3_deg 13.567 r_dihedral_angle_1_deg 5.54 r_scangle_it 2.429 r_scbond_it 1.476 r_angle_refined_deg 1.261 r_mcangle_it 0.89 r_angle_other_deg 0.857 r_mcbond_it 0.51 r_mcbond_other 0.137 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3570 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 167
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