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Structure of a YebC family protein (CBU_1566) from Coxiella burnetii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.1 M Na HEPES, 2.4 M ammonium sulfate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.17 43.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.062 α = 90 b = 53.062 β = 90 c = 167.538 γ = 90
Symmetry Space Group P 41 21 2
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 315 2011-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.979 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.15 100 99.8 0.096 48.4 26.5 13955 13933 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.19 100 0.681 5.3 27.6 666
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 (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 2.15 44.83 13193 13165 691 99.79 0.22122 0.21935 0.2265 0.25893 0.2628 RANDOM 50.555
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] 0.63 0.63 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.672 r_dihedral_angle_3_deg 15.134 r_dihedral_angle_4_deg 14.615 r_dihedral_angle_1_deg 4.695 r_scangle_it 2.07 r_scbond_it 1.189 r_angle_refined_deg 0.946 r_angle_other_deg 0.764 r_mcangle_it 0.643 r_mcbond_it 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.672 r_dihedral_angle_3_deg 15.134 r_dihedral_angle_4_deg 14.615 r_dihedral_angle_1_deg 4.695 r_scangle_it 2.07 r_scbond_it 1.189 r_angle_refined_deg 0.946 r_angle_other_deg 0.764 r_mcangle_it 0.643 r_mcbond_it 0.315 r_mcbond_other 0.057 r_chiral_restr 0.051 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1806 Nucleic Acid Atoms Solvent Atoms 64 Heterogen Atoms 5
Software Software Software Name Purpose CBASS data collection SOLVE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling