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Crystal structure of Human Microsomal Glutathione S-Transferase 2 at 3.8 Angstroms resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2UUI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 5.5 298 0.1M MES
0.4M Lithium citrate
40% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.77 55.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.942 α = 90 b = 151.149 β = 90 c = 70.251 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 100 PIXEL DECTRIS PILATUS3 6M 2015-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.8 44.45 99.42 0.423 0.987 4.64 12.2 6009
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.8 3.93 99.66 2.247 0.663 1.15 12.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2UUI 3.8 44.45 5707 301 99.34 0.3067 0.305 0.3124 0.33682 0.3421 RANDOM 139.126
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] -8.78 -9.22 18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.93 r_long_range_B_refined 26.373 r_long_range_B_other 26.373 r_mcangle_it 16.73 r_mcangle_other 16.727 r_dihedral_angle_4_deg 14.81 r_scangle_other 14.496 r_dihedral_angle_3_deg 13.006 r_mcbond_it 10.268 r_mcbond_other 10.266
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.93 r_long_range_B_refined 26.373 r_long_range_B_other 26.373 r_mcangle_it 16.73 r_mcangle_other 16.727 r_dihedral_angle_4_deg 14.81 r_scangle_other 14.496 r_dihedral_angle_3_deg 13.006 r_mcbond_it 10.268 r_mcbond_other 10.266 r_scbond_it 8.413 r_scbond_other 8.408 r_dihedral_angle_1_deg 4.249 r_angle_refined_deg 1.199 r_angle_other_deg 0.933 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 3148 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing