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Structure of Escherichia coli yfbU gene product
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 sodium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.8 55.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 230.521 α = 90 b = 230.521 β = 90 c = 230.521 γ = 90
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 CUSTOM-MADE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 2 50 100 0.076 0.076 28.6 10.9 272350 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 99.9 0.951 0.951 1.91 8.8 11646
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIR THROUGHOUT 2 15 -3 271727 270667 1366 99.96 0.21245 0.1897 0.18951 0.22652 0.2268 RANDOM 34.183
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.507 r_dihedral_angle_4_deg 19.269 r_dihedral_angle_3_deg 15.147 r_dihedral_angle_1_deg 6.484 r_scangle_it 3.613 r_scbond_it 2.493 r_mcangle_it 1.646 r_angle_refined_deg 1.62 r_mcbond_it 1.489 r_angle_other_deg 0.984
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.507 r_dihedral_angle_4_deg 19.269 r_dihedral_angle_3_deg 15.147 r_dihedral_angle_1_deg 6.484 r_scangle_it 3.613 r_scbond_it 2.493 r_mcangle_it 1.646 r_angle_refined_deg 1.62 r_mcbond_it 1.489 r_angle_other_deg 0.984 r_mcbond_other 0.287 r_symmetry_vdw_other 0.262 r_nbd_refined 0.224 r_symmetry_hbond_refined 0.213 r_symmetry_vdw_refined 0.211 r_nbtor_refined 0.188 r_xyhbond_nbd_refined 0.186 r_nbd_other 0.18 r_xyhbond_nbd_other 0.125 r_chiral_restr 0.116 r_nbtor_other 0.087 r_symmetry_hbond_other 0.043 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22375 Nucleic Acid Atoms Solvent Atoms 1618 Heterogen Atoms 300
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELXD phasing REFMAC refinement