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Ketosynthase from module 6 of the bacillaene synthase from Bacillus subtilis 168 (C167S mutant, crystal form 1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4NA1 PksKS2 (4NA1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 15 mg/ml protein in 150 mM NaCl and 20 mM HEPES pH 7.5 mixed 1:1 in 1.7 M LiSO4 and 100 mM Tris pH 8
Crystal Properties Matthews coefficient Solvent content 2.64 53.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.436 α = 90 b = 108.194 β = 96.43 c = 151.846 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 PIXEL PSI PILATUS 6M 2013-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2 150 99.2 2.5 2.1 183336
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 PksKS2 (4NA1) 2 150 183336 9722 99.2 0.2039 0.2022 0.2102 0.23649 0.2434 RANDOM 44.025
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.474 r_dihedral_angle_4_deg 17.904 r_dihedral_angle_3_deg 14.886 r_long_range_B_refined 10.977 r_long_range_B_other 10.964 r_scangle_other 8.788 r_dihedral_angle_1_deg 6.771 r_mcangle_it 6.546 r_mcangle_other 6.546 r_scbond_it 6.409
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.474 r_dihedral_angle_4_deg 17.904 r_dihedral_angle_3_deg 14.886 r_long_range_B_refined 10.977 r_long_range_B_other 10.964 r_scangle_other 8.788 r_dihedral_angle_1_deg 6.771 r_mcangle_it 6.546 r_mcangle_other 6.546 r_scbond_it 6.409 r_scbond_other 6.409 r_mcbond_it 5.162 r_mcbond_other 5.161 r_angle_other_deg 3.575 r_angle_refined_deg 1.408 r_chiral_restr 0.105 r_gen_planes_other 0.028 r_bond_refined_d 0.019 r_gen_planes_refined 0.015 r_bond_other_d 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 17239 Nucleic Acid Atoms Solvent Atoms 1358 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing