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Crystal Structure of adenine-sulfotransferase from Bos Taurus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289.15 1.5 M ammonium sulfate, 0.1 M Tris (pH 8.5), 12% glycerol
Crystal Properties Matthews coefficient Solvent content 2.86 56.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.48 α = 90 b = 87.434 β = 90 c = 263.83 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 288.15 PIXEL Bruker PHOTON II 2023-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE BRUKER D8 QUEST 1.542
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 3.39 43.97 99.6 0.178 0.2 0.09 0.991 7.1 4.6 8422
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 3.39 3.66 0.708 0.798 0.36 0.642 2
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 MOLECULAR REPLACEMENT THROUGHOUT 3.39 43.97 7971 450 99.13 0.2509 0.24764 0.2624 0.30408 0.3022 RANDOM
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] -94.58 189.2 -94.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.407 r_dihedral_angle_4_deg 17.138 r_dihedral_angle_3_deg 17.027 r_long_range_B_refined 8.637 r_long_range_B_other 8.636 r_dihedral_angle_1_deg 6.89 r_mcangle_it 4.512 r_mcangle_other 4.511 r_scangle_other 3.785 r_mcbond_it 2.664
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.407 r_dihedral_angle_4_deg 17.138 r_dihedral_angle_3_deg 17.027 r_long_range_B_refined 8.637 r_long_range_B_other 8.636 r_dihedral_angle_1_deg 6.89 r_mcangle_it 4.512 r_mcangle_other 4.511 r_scangle_other 3.785 r_mcbond_it 2.664 r_mcbond_other 2.657 r_scbond_it 2.169 r_scbond_other 2.169 r_angle_refined_deg 1.329 r_angle_other_deg 0.765 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3231 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 69
Software Software Software Name Purpose PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing