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X-ray structure of a putative triosephosphate isomerase from Toxoplasma gondii ME49
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 0.2 M Ammonium Sulphate, 0.1 M Bis-Tris, 25 % PEG3350
Crystal Properties Matthews coefficient Solvent content 2.26 45.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.368 α = 90 b = 115.533 β = 90.02 c = 78.719 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 CCD MARMOSAIC 300 mm CCD beryllium lenses 2016-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97875 APS 21-ID-G
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 30 99.9 0.1 15.04 3.9 67710
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 2.03 100 0.65 2.86 3.9 3393
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 30 63148 3412 97.87 0.16784 0.16575 0.1754 0.20794 0.2135 RANDOM 30.016
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] 0.18 -0.08 -0.54 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.005 r_dihedral_angle_4_deg 17.017 r_dihedral_angle_3_deg 13.72 r_dihedral_angle_1_deg 6.242 r_long_range_B_refined 5.718 r_long_range_B_other 5.463 r_scangle_other 2.583 r_angle_refined_deg 1.812 r_mcangle_it 1.754 r_mcangle_other 1.754
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.005 r_dihedral_angle_4_deg 17.017 r_dihedral_angle_3_deg 13.72 r_dihedral_angle_1_deg 6.242 r_long_range_B_refined 5.718 r_long_range_B_other 5.463 r_scangle_other 2.583 r_angle_refined_deg 1.812 r_mcangle_it 1.754 r_mcangle_other 1.754 r_scbond_it 1.682 r_scbond_other 1.643 r_mcbond_it 1.144 r_mcbond_other 1.143 r_angle_other_deg 1.011 r_chiral_restr 0.104 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7778 Nucleic Acid Atoms Solvent Atoms 1023 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PHENIX phasing Coot model building