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Crystal structure of the ferric enterobactin receptor (PfeA) in complex with BCV-L6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6Q5E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 294 PEG 8000, ADA, Magnesium acetate
Crystal Properties Matthews coefficient Solvent content 3.43 64.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.24 α = 90 b = 156.625 β = 90 c = 77.492 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 PILATUS 6M-F 2019-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
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 3.029 86.24 100 0.07 1 13.5 7.1 21109
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.03 3.08 0.485
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 6q5e 3.029 75.66 21067 1031 99.82 0.223 0.2205 0.2188 0.2623 0.2583 122.234
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] 3.667 -4.11 0.444
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.392 r_dihedral_angle_4_deg 17.659 r_dihedral_angle_3_deg 17.384 r_lrange_it 11.358 r_lrange_other 11.357 r_dihedral_angle_1_deg 10.733 r_scangle_it 9.172 r_scangle_other 9.171 r_mcangle_it 8.247 r_mcangle_other 8.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.392 r_dihedral_angle_4_deg 17.659 r_dihedral_angle_3_deg 17.384 r_lrange_it 11.358 r_lrange_other 11.357 r_dihedral_angle_1_deg 10.733 r_scangle_it 9.172 r_scangle_other 9.171 r_mcangle_it 8.247 r_mcangle_other 8.246 r_scbond_it 6.446 r_scbond_other 6.381 r_mcbond_other 5.647 r_mcbond_it 5.646 r_angle_other_deg 1.118 r_angle_refined_deg 1.111 r_symmetry_nbd_refined 0.302 r_nbd_other 0.275 r_nbd_refined 0.222 r_symmetry_nbd_other 0.21 r_nbtor_refined 0.169 r_xyhbond_nbd_refined 0.166 r_ext_dist_refined_d 0.078 r_symmetry_nbtor_other 0.077 r_symmetry_xyhbond_nbd_other 0.067 r_chiral_restr 0.048 r_gen_planes_refined 0.025 r_gen_planes_other 0.018 r_bond_refined_d 0.009 r_bond_other_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5370 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing