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Crystal structure of the Legionella pneumophila type II secretion system substrate NttE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 40% (v/v) ethylene glycol, 20% (w/v) polyethylene glycol 8000, 50 mM imidazole, 50 mM 2-(N-morpholine)ethanesulfonic acid pH 6.5, 300 mM magnesium chloride, 300 mM calcium chloride
Crystal Properties Matthews coefficient Solvent content 3.32 62.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.87 α = 90 b = 120.87 β = 90 c = 104.39 γ = 120
Symmetry Space Group P 32 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 PIXEL DECTRIS PILATUS3 S 6M 2014-05-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9793 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.2 104.68 99.9 0.071 0.09 0.024 25.1 13.9 45011 36.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 99.5 0.423 0.46 0.121 7.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.2 104.676 45010 2273 99.834 0.188 0.1867 0.1932 0.2105 0.2146 38.96
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] 1.145 0.573 1.145 -3.716
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.619 r_dihedral_angle_4_deg 16.094 r_dihedral_angle_3_deg 14.893 r_dihedral_angle_1_deg 7.583 r_lrange_it 5.926 r_lrange_other 5.853 r_scangle_it 4.098 r_scangle_other 4.097 r_mcangle_it 2.947 r_mcangle_other 2.947
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.619 r_dihedral_angle_4_deg 16.094 r_dihedral_angle_3_deg 14.893 r_dihedral_angle_1_deg 7.583 r_lrange_it 5.926 r_lrange_other 5.853 r_scangle_it 4.098 r_scangle_other 4.097 r_mcangle_it 2.947 r_mcangle_other 2.947 r_scbond_it 2.535 r_scbond_other 2.535 r_angle_other_deg 2.296 r_mcbond_it 1.8 r_mcbond_other 1.798 r_angle_refined_deg 1.698 r_nbd_other 0.243 r_symmetry_nbd_refined 0.215 r_symmetry_nbd_other 0.214 r_nbd_refined 0.208 r_symmetry_xyhbond_nbd_refined 0.185 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.166 r_chiral_restr 0.084 r_symmetry_nbtor_other 0.074 r_bond_other_d 0.034 r_gen_planes_other 0.013 r_bond_refined_d 0.011 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4330 Nucleic Acid Atoms Solvent Atoms 345 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling SHARP phasing