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Crystal Structure of the CptIN Type III Toxin-Antitoxin System from Eubacterium rectale
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.8 293 CaCl2, 2-Propanol, Sodium Acetate, pH 4.8, vapor diffusion, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.11 α = 90 b = 185.891 β = 92.63 c = 138.78 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS 6M 2013-05-08 M SINGLE WAVELENGTH 2 2 x-ray 100 PIXEL DECTRIS PILATUS 6M 2013-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02 2 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02
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 2.2 63.12 97.9 0.048 11.6 2.3 157960
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 2.2 2.24 97 0.338 2.4 2.1
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 2.2 63.12 150001 7919 97.85 0.2012 0.19944 0.2125 0.23386 0.2461 RANDOM 40.97
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] -2.65 0.57 -0.23 2.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.265 r_dihedral_angle_4_deg 22.687 r_dihedral_angle_3_deg 17.686 r_dihedral_angle_1_deg 6.108 r_angle_other_deg 1.854 r_angle_refined_deg 1.72 r_chiral_restr 0.101 r_gen_planes_refined 0.014 r_bond_refined_d 0.013 r_bond_other_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.265 r_dihedral_angle_4_deg 22.687 r_dihedral_angle_3_deg 17.686 r_dihedral_angle_1_deg 6.108 r_angle_other_deg 1.854 r_angle_refined_deg 1.72 r_chiral_restr 0.101 r_gen_planes_refined 0.014 r_bond_refined_d 0.013 r_bond_other_d 0.011 r_gen_planes_other 0.011 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10363 Nucleic Acid Atoms 7696 Solvent Atoms 1322 Heterogen Atoms 48
Software Software Software Name Purpose Aimless data scaling SOLVE phasing REFMAC refinement PDB_EXTRACT data extraction GDA data collection MOSFLM data reduction SCALA data scaling PHENIX phasing