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Crystal Structure of SCO1815: a Beta-Ketoacyl-Acyl Carrier Protein Reductase from Streptomyces coelicolor A3(2)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IO1 PDB entry 1IO1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 20% PEG MME 2000, 10 mM NiCl2, 100 mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.56 52.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.759 α = 90 b = 113.759 β = 90 c = 73.937 γ = 120
Symmetry Space Group P 31 2 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 ADSC QUANTUM 315 mirrors 2004-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 1.03155 SSRL BL11-1
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 1.99 49.3 100 0.08 0.08 14.9 14.4 37985 37985
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 1.99 2.07 100 0.497 0.496 7.8 14.5
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 PDB entry 1IO1 1.99 27.33 36058 36058 1895 99.6 0.19042 0.19042 0.18866 0.1841 0.2238 0.2194 RANDOM 34.95
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 -0.13 -0.26 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.065 r_dihedral_angle_4_deg 19.715 r_dihedral_angle_3_deg 14.798 r_dihedral_angle_1_deg 5.44 r_scangle_it 4.694 r_scbond_it 2.979 r_mcangle_it 2.105 r_angle_refined_deg 1.396 r_mcbond_it 1.266 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.065 r_dihedral_angle_4_deg 19.715 r_dihedral_angle_3_deg 14.798 r_dihedral_angle_1_deg 5.44 r_scangle_it 4.694 r_scbond_it 2.979 r_mcangle_it 2.105 r_angle_refined_deg 1.396 r_mcbond_it 1.266 r_nbtor_refined 0.304 r_symmetry_hbond_refined 0.293 r_symmetry_vdw_refined 0.257 r_nbd_refined 0.21 r_xyhbond_nbd_refined 0.193 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3268 Nucleic Acid Atoms Solvent Atoms 303 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement CNS refinement HKL-2000 data reduction HKL-2000 data scaling CNS phasing HKL-2000 data collection