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Crystal structure of the Legionella pneumophila type II secretion system substrate NttC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 3.5 M ammonium chloride, 100 mM Tris-HCl pH 8.0
Crystal Properties Matthews coefficient Solvent content 3.34 63.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.39 α = 90 b = 84.39 β = 90 c = 151.66 γ = 120
Symmetry Space Group P 62 2 2
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 2013-03-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9796, 0.9797, 0.9681 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 3.1 73.084 100 0.283 0.29 0.064 0.994 10.1 20.4 6280 56.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.1 3.18 100 1.022 1.048 0.226 0.933 3.7 20.9
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 MAD FREE R-VALUE 3.103 73.084 6250 303 99.984 0.252 0.2502 0.2599 0.2886 0.2982 59.913
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] -0.307 -0.154 -0.307 0.996
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.078 r_dihedral_angle_4_deg 17.478 r_dihedral_angle_3_deg 12.823 r_dihedral_angle_1_deg 6.611 r_angle_refined_deg 1.281 r_angle_other_deg 1.081 r_nbd_other 0.219 r_nbd_refined 0.183 r_symmetry_nbd_refined 0.181 r_symmetry_nbd_other 0.175
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.078 r_dihedral_angle_4_deg 17.478 r_dihedral_angle_3_deg 12.823 r_dihedral_angle_1_deg 6.611 r_angle_refined_deg 1.281 r_angle_other_deg 1.081 r_nbd_other 0.219 r_nbd_refined 0.183 r_symmetry_nbd_refined 0.181 r_symmetry_nbd_other 0.175 r_nbtor_refined 0.152 r_xyhbond_nbd_refined 0.126 r_ncsr_local_group_1 0.081 r_symmetry_nbtor_other 0.07 r_chiral_restr 0.038 r_bond_refined_d 0.004 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1626 Nucleic Acid Atoms Solvent Atoms 1 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling SHARP phasing