☰ Navigation Tabs
Structure of the soluble AhlC triple head mutant of the tripartite alpha-pore forming toxin, AHL, from Aeromonas hydrophila.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6H2E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 289.15 0.1M imidazole pH 8.0, 10% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.94 58.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.538 α = 90 b = 88.538 β = 90 c = 290.975 γ = 120
Symmetry Space Group P 61 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 103 PIXEL DECTRIS PILATUS3 6M 2018-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97951 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.9 76.86 100 0.997 16.1 18.7 52765
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.9
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 6H2E 1.92 76.68 50089 2550 100 0.23658 0.23449 0.2421 0.27796 0.2792 RANDOM 46.904
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] 0.75 0.37 0.75 -2.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.544 r_dihedral_angle_4_deg 15.059 r_dihedral_angle_3_deg 12.005 r_long_range_B_other 8.423 r_long_range_B_refined 8.409 r_scangle_other 6.776 r_mcangle_it 5.819 r_mcangle_other 5.818 r_scbond_it 4.784 r_scbond_other 4.783
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.544 r_dihedral_angle_4_deg 15.059 r_dihedral_angle_3_deg 12.005 r_long_range_B_other 8.423 r_long_range_B_refined 8.409 r_scangle_other 6.776 r_mcangle_it 5.819 r_mcangle_other 5.818 r_scbond_it 4.784 r_scbond_other 4.783 r_mcbond_it 4.311 r_mcbond_other 4.31 r_dihedral_angle_1_deg 3.283 r_angle_refined_deg 1.613 r_angle_other_deg 1.427 r_chiral_restr 0.084 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3881 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling PHASER phasing