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Crystal Structure of iron-loaded Yersinia enterocolitica YfuA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 zinc acetate dihydrate, PEG 8000, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.28 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.392 α = 90 b = 46.951 β = 103.51 c = 62.454 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE RIGAKU 2004-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.53 33.56 80.58 43974 35434
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.53 1.58 11.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.53 60.86 43974 35434 1869 80.58 0.163 0.16304 0.16147 0.1605 0.19304 0.1922 RANDOM 16.12
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] -0.21 -0.16 0.31 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.138 r_dihedral_angle_4_deg 19.224 r_dihedral_angle_3_deg 12.12 r_dihedral_angle_1_deg 9.017 r_scangle_it 2.865 r_scbond_it 1.711 r_angle_refined_deg 1.221 r_mcangle_it 0.865 r_mcbond_it 0.528 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.138 r_dihedral_angle_4_deg 19.224 r_dihedral_angle_3_deg 12.12 r_dihedral_angle_1_deg 9.017 r_scangle_it 2.865 r_scbond_it 1.711 r_angle_refined_deg 1.221 r_mcangle_it 0.865 r_mcbond_it 0.528 r_nbtor_refined 0.302 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.156 r_symmetry_hbond_refined 0.113 r_xyhbond_nbd_refined 0.095 r_chiral_restr 0.08 r_metal_ion_refined 0.049 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2380 Nucleic Acid Atoms Solvent Atoms 477 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction CCP4 data scaling SHELXD phasing SHELXE model building