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Human GSTO1-1 complexed with C5-1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EEM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 Reservoir volume consisted of 1 ml of 1.9 M (NH4)2SO4, 200 mM potassium sodium tartrate, 3.4 mM ZnSO4, 16.7 mM citric acid, 1.86 mM tri-sodium citrate. Protein (volume 1 uL) at 8.9 mg/ml in 20 mM Tris pH 8.0, 60 mM NaCl and 1 mM DTT was mixed with 1uL of reservoir solution on a siliconised cover slip.
Crystal Properties Matthews coefficient Solvent content 2.41 48.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.001 α = 90 b = 57.001 β = 90 c = 139.178 γ = 120
Symmetry Space Group P 31 2 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 ADSC QUANTUM 210r 2017-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95370 Australian Synchrotron MX1
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 1.99 46.568 98.9 0.067 0.083 0.036 0.998 10.8 5.2 18337
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 1.99 2.05 93.9 0.482 0.578 0.346 0.915 2.3 5.2
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.994 46.568 18316 936 98.526 0.187 0.184 0.1872 0.2485 0.2504 34.526
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] 0.41 0.205 0.41 -1.331
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.782 r_dihedral_angle_6_deg 14.175 r_lrange_it 8.221 r_lrange_other 8.171 r_dihedral_angle_1_deg 6.219 r_dihedral_angle_2_deg 5.804 r_scangle_other 4.287 r_scangle_it 4.284 r_scbond_it 2.737 r_mcangle_it 2.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.782 r_dihedral_angle_6_deg 14.175 r_lrange_it 8.221 r_lrange_other 8.171 r_dihedral_angle_1_deg 6.219 r_dihedral_angle_2_deg 5.804 r_scangle_other 4.287 r_scangle_it 4.284 r_scbond_it 2.737 r_mcangle_it 2.736 r_mcangle_other 2.735 r_scbond_other 2.71 r_mcbond_it 1.832 r_mcbond_other 1.832 r_angle_refined_deg 1.69 r_angle_other_deg 0.61 r_nbd_refined 0.243 r_nbd_other 0.222 r_symmetry_nbd_other 0.215 r_xyhbond_nbd_refined 0.208 r_symmetry_xyhbond_nbd_refined 0.197 r_nbtor_refined 0.194 r_symmetry_nbd_refined 0.173 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.08 r_symmetry_xyhbond_nbd_other 0.057 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1915 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing