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The structure of DSZS acyltransferase with carrier protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SBM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 2M ammonium sulfate and 5% isopropanol
Crystal Properties Matthews coefficient Solvent content 2.49 50.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.324 α = 90 b = 96.629 β = 90 c = 99.056 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 ADSC QUANTUM 315r 2018-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1 Photon Factory BL-5A
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 2.03 50 100 0.095 12.9 6.7 56711
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 2.03 2.08 100 0.942 2 6.8
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 3SBM 2.03 48.36 53843 2801 99.96 0.18483 0.18291 0.1907 0.22236 0.2294 RANDOM 35.473
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] -2.25 1.1 1.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.321 r_dihedral_angle_4_deg 20.875 r_dihedral_angle_3_deg 15.824 r_dihedral_angle_1_deg 5.922 r_angle_refined_deg 1.99 r_angle_other_deg 1.028 r_chiral_restr 0.137 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_bond_other_d 0.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.321 r_dihedral_angle_4_deg 20.875 r_dihedral_angle_3_deg 15.824 r_dihedral_angle_1_deg 5.922 r_angle_refined_deg 1.99 r_angle_other_deg 1.028 r_chiral_restr 0.137 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_bond_other_d 0.009 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it 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 5570 Nucleic Acid Atoms Solvent Atoms 271 Heterogen Atoms 98
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing ARP/wARP model building Coot model building