☰ Navigation Tabs
Crystal structure of the ferric enterobactin receptor (PfeA) from Pseudomonas aeruginosa in complex with azotochelin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M9K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 PEG 8000, ADA, Magnesium acetate
Crystal Properties Matthews coefficient Solvent content 3.55 65.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.64 α = 90 b = 158.08 β = 90 c = 78.99 γ = 90
Symmetry Space Group P 21 21 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 2016-08-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.78 86.64 99.9 0.048 0.999 20.8 7.3 28035
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.78 2.85 99.8 1.057 0.677 1.8 7.3
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 1m9k 2.78 86.64 26627 1364 99.88 0.22558 0.22381 0.2238 0.26025 0.2516 RANDOM 107.054
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] 2.81 2.28 -5.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.686 r_dihedral_angle_4_deg 17.46 r_dihedral_angle_3_deg 17.27 r_long_range_B_refined 10.83 r_long_range_B_other 10.83 r_dihedral_angle_1_deg 8.936 r_scangle_other 8.385 r_mcangle_other 7.884 r_mcangle_it 7.883 r_scbond_it 6.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.686 r_dihedral_angle_4_deg 17.46 r_dihedral_angle_3_deg 17.27 r_long_range_B_refined 10.83 r_long_range_B_other 10.83 r_dihedral_angle_1_deg 8.936 r_scangle_other 8.385 r_mcangle_other 7.884 r_mcangle_it 7.883 r_scbond_it 6.088 r_scbond_other 6.088 r_mcbond_it 5.934 r_mcbond_other 5.93 r_angle_refined_deg 1.379 r_angle_other_deg 0.683 r_chiral_restr 0.091 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 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 5363 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing