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Structure of the bacterial toxin, TecA, an asparagine deamidase from Alcaligenes faecalis.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 290 0.06 M divalents (0.3 M MgCl2.6H2O + 0.3 M CaCl2.2H2O), 0.1 M buffer system 1 (1.0 M Imidazole, 1.0 M MES monohydrate) pH 6.5, 30 % v/v precipitant mix 1 (40 % v/v PEG 500 MME, 20 % w/v PEG 20000)
Crystal Properties Matthews coefficient Solvent content 2.28 46.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.051 α = 90 b = 71.407 β = 90 c = 95.923 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER2 X 16M 2019-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97106 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.84 57.31 100 0.989 7.5 6.9 28829
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.84 1.87 0.681
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.84 57.344 28759 1428 99.882 0.192 0.1903 0.1916 0.2327 0.2346 29.58
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] -1.43 -0.82 2.251
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.266 r_dihedral_angle_4_deg 19.521 r_dihedral_angle_3_deg 14.007 r_dihedral_angle_1_deg 6.581 r_lrange_it 4.746 r_lrange_other 4.746 r_scangle_it 3.666 r_scangle_other 3.665 r_scbond_it 2.616 r_scbond_other 2.552
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.266 r_dihedral_angle_4_deg 19.521 r_dihedral_angle_3_deg 14.007 r_dihedral_angle_1_deg 6.581 r_lrange_it 4.746 r_lrange_other 4.746 r_scangle_it 3.666 r_scangle_other 3.665 r_scbond_it 2.616 r_scbond_other 2.552 r_mcangle_it 2.007 r_mcangle_other 2.007 r_mcbond_other 1.614 r_mcbond_it 1.613 r_angle_refined_deg 1.499 r_angle_other_deg 1.356 r_nbd_other 0.222 r_nbd_refined 0.2 r_symmetry_nbd_refined 0.193 r_symmetry_nbd_other 0.175 r_nbtor_refined 0.167 r_xyhbond_nbd_refined 0.161 r_symmetry_xyhbond_nbd_refined 0.146 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2490 Nucleic Acid Atoms Solvent Atoms 158 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling CRANK2 phasing