☰ Navigation Tabs
Glutathione transferase U25 from Arabidopsis thaliana in complex with glutathione disulfide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4TOP PDB ENTRY 4TOP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 0.2 M AMMONIUM ACETATE, 0.1 M BIS-TRIS PROPANE PH 5.5 AND 23 % (W/V) PEG 3350; 2 MM GSH
Crystal Properties Matthews coefficient Solvent content 2.52 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.83 α = 90 b = 107.668 β = 90 c = 108.755 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 120 PIXEL DECTRIS PILATUS 6M 2016-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 1.95 48.54 99.8 0.07 12.7 6.4 75638 2
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 1.95 1.99 100 0.54 3 6.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4TOP 1.95 48.54 71875 3688 99.74 0.20521 0.20458 0.21736 0.2039 RANDOM 32.894
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] -0.16 16.35 -16.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.948 r_dihedral_angle_3_deg 13.71 r_dihedral_angle_4_deg 10.928 r_dihedral_angle_1_deg 5.55 r_scbond_it 4.321 r_mcangle_it 3.741 r_mcbond_it 3.197 r_mcbond_other 3.195 r_angle_refined_deg 1.935 r_angle_other_deg 1.814
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.948 r_dihedral_angle_3_deg 13.71 r_dihedral_angle_4_deg 10.928 r_dihedral_angle_1_deg 5.55 r_scbond_it 4.321 r_mcangle_it 3.741 r_mcbond_it 3.197 r_mcbond_other 3.195 r_angle_refined_deg 1.935 r_angle_other_deg 1.814 r_chiral_restr 0.122 r_bond_refined_d 0.021 r_gen_planes_refined 0.015 r_bond_other_d 0.014 r_gen_planes_other 0.01 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7045 Nucleic Acid Atoms Solvent Atoms 719 Heterogen Atoms 160
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing