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Structure basis of lipopolysaccharide biogenesis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 0.1 M zinc acetate, 0.1M sodium cacodylate, 18% PEG8000 , pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.91 57.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 173.43 α = 90 b = 76.082 β = 111.52 c = 213.596 γ = 90
Symmetry Space Group I 1 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 273 PIXEL DECTRIS PILATUS 6M 2013-05-24 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.97887, 0.97835, 0.98181, 0.97750 Diamond I24
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 2.8 107.49 9.7 0.154 0.16 1.6 5.6 64252 2 1.6
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 2.8 3 94 0.904 0.93 1.6 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.8 107.49 67200 60999 3253 99.83 0.28638 0.28535 0.30508 0.2837 RANDOM 120.272
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] -2.88 -0.84 5.33 -3.06
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 74.204 r_dihedral_angle_2_deg 44.428 r_sphericity_bonded 38.785 r_dihedral_angle_3_deg 21.706 r_dihedral_angle_4_deg 19.583 r_dihedral_angle_1_deg 6.499 r_rigid_bond_restr 2.448 r_angle_refined_deg 1.718 r_chiral_restr 0.119 r_bond_refined_d 0.016
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 74.204 r_dihedral_angle_2_deg 44.428 r_sphericity_bonded 38.785 r_dihedral_angle_3_deg 21.706 r_dihedral_angle_4_deg 19.583 r_dihedral_angle_1_deg 6.499 r_rigid_bond_restr 2.448 r_angle_refined_deg 1.718 r_chiral_restr 0.119 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11095 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 12
Software Software Software Name Purpose EDNA data collection SHARP phasing REFMAC refinement XDS data reduction XDS data scaling