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Structure of Legionella pneumophila Lcl C-terminal domain bound to sulphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Lcl-CTD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 20% (v/v) glycerol, 20% (w/v) polyethylene glycol (PEG) 4000, 30 mM NaNO3, 30 mM Na2HPO4, 30 mM (NH4)2SO4, 100 mM bicine, 100 mM tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.07 40.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.91 α = 90 b = 74.91 β = 90 c = 94.97 γ = 120
Symmetry Space Group P 3 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 PILATUS 6M-F 2015-01-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
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 1.9 64.91 100 0.074 28.7 19.3 24856 24.7
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 1.9 1.93 99.8 0.541 5.8 14.8
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 MOLECULAR REPLACEMENT FREE R-VALUE 1.9 64.874 24854 1200 99.968 0.162 0.1604 0.1635 0.1874 0.1897 25.968
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] 0.222 0.111 0.222 -0.721
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.377 r_dihedral_angle_3_deg 13.454 r_dihedral_angle_1_deg 6.799 r_lrange_it 6.791 r_lrange_other 6.726 r_scangle_it 5.743 r_scangle_other 5.714 r_dihedral_angle_2_deg 5.635 r_scbond_it 3.831 r_scbond_other 3.811
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.377 r_dihedral_angle_3_deg 13.454 r_dihedral_angle_1_deg 6.799 r_lrange_it 6.791 r_lrange_other 6.726 r_scangle_it 5.743 r_scangle_other 5.714 r_dihedral_angle_2_deg 5.635 r_scbond_it 3.831 r_scbond_other 3.811 r_mcangle_it 3.138 r_mcangle_other 3.138 r_mcbond_it 2.227 r_mcbond_other 2.226 r_angle_refined_deg 1.462 r_angle_other_deg 0.761 r_nbd_other 0.232 r_symmetry_nbd_other 0.205 r_nbd_refined 0.198 r_nbtor_refined 0.18 r_symmetry_nbd_refined 0.168 r_xyhbond_nbd_refined 0.165 r_symmetry_xyhbond_nbd_refined 0.158 r_symmetry_nbtor_other 0.085 r_ncsr_local_group_1 0.073 r_chiral_restr 0.065 r_gen_planes_other 0.01 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2058 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing