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Crystal structure of the triscatecholate siderophore binding protein FeuA from Bacillus subtilis complexed with Ferri-Enterobactin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WHY PDB ENTRY 2WHY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.2 PROTEIN WAS CRYSTALLIZED FROM 34% (V/V) PEG 600, 100 MM PHOSPHATE-CITRATE, PH 5.20
Crystal Properties Matthews coefficient Solvent content 1.86 33.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.44 α = 90 b = 63.56 β = 100.65 c = 56.52 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC CCD TOROIDAL MIRROR 2010-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 41.83 99.1 0.06 14.8 3.1 19907 -3 21.445
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 2 97.7 0.49 2.5 3.1
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 PDB ENTRY 2WHY 1.9 41.83 18136 1754 99.04 0.18974 0.18466 0.1885 0.2432 0.2448 RANDOM 22.421
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] 2.19 1.4 -2.46 0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.378 r_dihedral_angle_3_deg 13.293 r_dihedral_angle_4_deg 10.05 r_dihedral_angle_1_deg 5.007 r_scangle_it 2.122 r_scbond_it 1.307 r_angle_refined_deg 1.213 r_angle_other_deg 0.814 r_mcangle_it 0.806 r_mcbond_it 0.448
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.378 r_dihedral_angle_3_deg 13.293 r_dihedral_angle_4_deg 10.05 r_dihedral_angle_1_deg 5.007 r_scangle_it 2.122 r_scbond_it 1.307 r_angle_refined_deg 1.213 r_angle_other_deg 0.814 r_mcangle_it 0.806 r_mcbond_it 0.448 r_mcbond_other 0.098 r_chiral_restr 0.063 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.002 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2156 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing