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beta-ketoacyl-ACP synthase I (KAS) from E. coli, apo structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EK4 PDB ENTRY 1EK4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 CRYSTALLIZATION CONDITIONS: HANGING DROP AGAINST 3% PEG 400, 1.9 M AMMONIUM SULPHATE, 0.1 M TRIS PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.914 α = 90 b = 138.355 β = 90 c = 211.914 γ = 90
Symmetry Space Group P 21 21 21
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 MARRESEARCH 2004-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.5 20 99.4 0.01 12 3.49 532531 3
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 1.5 1.6 98 0.51 3.03 3.04
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1EK4 1.5 115.47 262111 13920 99.8 0.199 0.197 0.199 0.238 RANDOM 20.17
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] -0.19 0.66 -0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.825 r_dihedral_angle_4_deg 17.479 r_dihedral_angle_3_deg 13.383 r_dihedral_angle_1_deg 5.909 r_scangle_it 2.173 r_mcangle_it 1.9 r_scbond_it 1.555 r_angle_refined_deg 1.528 r_mcbond_it 1.35 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.825 r_dihedral_angle_4_deg 17.479 r_dihedral_angle_3_deg 13.383 r_dihedral_angle_1_deg 5.909 r_scangle_it 2.173 r_mcangle_it 1.9 r_scbond_it 1.555 r_angle_refined_deg 1.528 r_mcbond_it 1.35 r_nbtor_refined 0.304 r_symmetry_hbond_refined 0.243 r_symmetry_vdw_refined 0.223 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.209 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11870 Nucleic Acid Atoms Solvent Atoms 2334 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling