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Crystal structure of CdiI from Burkholderia dolosa AUO158
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 0.2 M (NH4)2SO4, 0.1 sodium acetate pH 5.6, 30% PEG 4000, cryo saturated sucrose
Crystal Properties Matthews coefficient Solvent content 3.57 65.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.298 α = 90 b = 116.298 β = 90 c = 70.065 γ = 120
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 QUANTUM 315r mirrors 2014-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97918 APS 19-ID
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 2.5 30.01 100 0.13 12.2 5 18768 -3
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 2.5 2.54 99 0.587 1.83 4.6
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 2.5 30.01 16893 1861 99.82 0.19191 0.19044 0.1659 0.20492 0.1798 thin resolution shells 45.16
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] 14.4 14.4 -28.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.27 r_dihedral_angle_3_deg 16.082 r_dihedral_angle_4_deg 16.062 r_dihedral_angle_1_deg 6.947 r_long_range_B_refined 3.226 r_long_range_B_other 3.226 r_scangle_other 2.048 r_scbond_it 1.579 r_scbond_other 1.545 r_angle_refined_deg 1.432
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.27 r_dihedral_angle_3_deg 16.082 r_dihedral_angle_4_deg 16.062 r_dihedral_angle_1_deg 6.947 r_long_range_B_refined 3.226 r_long_range_B_other 3.226 r_scangle_other 2.048 r_scbond_it 1.579 r_scbond_other 1.545 r_angle_refined_deg 1.432 r_mcangle_it 1.18 r_mcangle_other 1.179 r_angle_other_deg 0.987 r_mcbond_it 0.683 r_mcbond_other 0.682 r_chiral_restr 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2420 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing