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Crystal structure of Albireti Toxin, a diphtheria toxin homolog, from Streptomyces albireticuli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 10 mM Tris-HCl pH 7.0, 200 mM calcium acetate hydrate, 20% PEG3000
Crystal Properties Matthews coefficient Solvent content 2.82 56.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.95 α = 90 b = 137.08 β = 90 c = 203.51 γ = 90
Symmetry Space Group P 21 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 PIXEL DECTRIS EIGER X 9M 2018-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 0.97951 NSLS-II 17-ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.687 200 99.9 0.189 0.196 0.052 0.998 10.9 13.9 83962 49.43
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.687 2.696 100 1.435 1.486 0.383 0.833 14.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.69 60.8 1.34 83881 4120 99.86 0.2048 0.2025 0.2006 0.2477 0.2467 52.13
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 f_dihedral_angle_d 12.7594 f_angle_d 0.7818 f_chiral_restr 0.0481 f_plane_restr 0.007 f_bond_d 0.0061
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17684 Nucleic Acid Atoms Solvent Atoms 511 Heterogen Atoms 72
Software Software Software Name Purpose autoPROC data processing autoPROC data reduction autoPROC data scaling CRANK2 phasing PHENIX refinement