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1.50 Angstrom Crystal Structure of C-terminal Fragment (residues 322-384) of Iron Uptake System Component EfeO from Yersinia pestis.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 295 Protein: 14.1 mg/ml, 0.01M Tris HCl (pH 8.3);
Screen: PACT (E3), 0.2M Sodium iodide, 20% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.2 44.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.037 α = 90 b = 64.001 β = 90 c = 173.151 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 300 mm CCD C(111) 2016-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.5 30 100 0.067 0.067 43.4 7.2 62217 -3 18.8
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 1.5 1.53 100 0.66 0.933 3.8 7.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.5 29.61 58666 3112 99.94 0.17442 0.17293 0.1816 0.2025 0.2089 RANDOM 22.542
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] 0.28 0.73 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.312 r_sphericity_bonded 19.256 r_sphericity_free 19.019 r_dihedral_angle_4_deg 15.435 r_rigid_bond_restr 12.991 r_dihedral_angle_3_deg 10.654 r_long_range_B_refined 4.772 r_long_range_B_other 4.573 r_dihedral_angle_1_deg 2.834 r_scangle_other 1.872
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.312 r_sphericity_bonded 19.256 r_sphericity_free 19.019 r_dihedral_angle_4_deg 15.435 r_rigid_bond_restr 12.991 r_dihedral_angle_3_deg 10.654 r_long_range_B_refined 4.772 r_long_range_B_other 4.573 r_dihedral_angle_1_deg 2.834 r_scangle_other 1.872 r_mcangle_other 1.601 r_mcangle_it 1.6 r_angle_refined_deg 1.278 r_scbond_it 1.171 r_scbond_other 1.171 r_mcbond_it 0.927 r_mcbond_other 0.921 r_angle_other_deg 0.813 r_chiral_restr 0.075 r_gen_planes_refined 0.025 r_gen_planes_other 0.021 r_bond_refined_d 0.009 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2928 Nucleic Acid Atoms Solvent Atoms 409 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing