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Crystal structure of the triscatecholate siderophore binding protein FeuA from Bacillus subtilis complexed with Ferric MECAM
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 PROTEIN WAS CRYSTALLIZED FROM 45% (V/V) PEG 300, 100 MM PHOSPHATE-CITRATE PH 5.00
Crystal Properties Matthews coefficient Solvent content 1.93 36.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.96 α = 90 b = 63.44 β = 110.27 c = 56.21 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 2010-03-09 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 2.15 40.55 96.9 0.05 18.4 3 13962 -3 39.067
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 2.15 2.27 98.3 0.6 2.2 2.9
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 PDB ENTRY 2WHY 2.15 37.49 12740 1206 96.53 0.18312 0.17812 0.1816 0.23659 0.2415 RANDOM 38.326
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] 3.11 2.11 -3.12 1.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.676 r_dihedral_angle_3_deg 14.172 r_dihedral_angle_4_deg 11.167 r_dihedral_angle_1_deg 5.161 r_scangle_it 1.603 r_angle_refined_deg 1.142 r_scbond_it 1.03 r_angle_other_deg 0.83 r_mcangle_it 0.641 r_mcbond_it 0.356
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.676 r_dihedral_angle_3_deg 14.172 r_dihedral_angle_4_deg 11.167 r_dihedral_angle_1_deg 5.161 r_scangle_it 1.603 r_angle_refined_deg 1.142 r_scbond_it 1.03 r_angle_other_deg 0.83 r_mcangle_it 0.641 r_mcbond_it 0.356 r_mcbond_other 0.068 r_chiral_restr 0.059 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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_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 2151 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing