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Crystal structure of the ferric enterobactin receptor mutant (Q482A) from Pseudomonas aeruginosa (PfeA) in complex with enterobactin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5M9B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 294 PEG 8000 ADA Magnesium acetate
Crystal Properties Matthews coefficient Solvent content 3.55 65.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.964 α = 90 b = 158.288 β = 90 c = 78.474 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 CCD RIGAKU SATURN 944+ 2016-08-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
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 2.96 79.14 93.3 0.071 21.7 6.3 21785
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 2.96 3 92.3 0.627 4.5
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 5M9B 2.96 79.14 18979 1024 85.57 0.30187 0.30109 0.3044 0.31574 0.3184 RANDOM 97.973
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] -2.22 11.1 -8.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.873 r_dihedral_angle_3_deg 17.037 r_dihedral_angle_4_deg 16.065 r_long_range_B_other 9.999 r_long_range_B_refined 9.998 r_dihedral_angle_1_deg 8.584 r_mcangle_it 5.523 r_mcangle_other 5.523 r_scangle_other 5.29 r_mcbond_it 3.543
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.873 r_dihedral_angle_3_deg 17.037 r_dihedral_angle_4_deg 16.065 r_long_range_B_other 9.999 r_long_range_B_refined 9.998 r_dihedral_angle_1_deg 8.584 r_mcangle_it 5.523 r_mcangle_other 5.523 r_scangle_other 5.29 r_mcbond_it 3.543 r_mcbond_other 3.542 r_scbond_it 3.416 r_scbond_other 3.378 r_angle_refined_deg 1.44 r_angle_other_deg 0.744 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 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 5366 Nucleic Acid Atoms Solvent Atoms 1 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing