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Crystal Structure of mu class glutathione S-transferase (GSTM2-2) in complex with glutathione and 6-(7-Nitro-2,1,3-benzoxadiazol-4-ylthio)hexanol (NBDHEX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HNC PDB ENTRY 1HNC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 16% PEG 8000, 200mM NaCl, 100mM MES , pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.37 48.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.75 α = 90 b = 78.016 β = 90 c = 219.362 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 100 CCD MARMOSAIC 225 mm CCD 2008-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 2.5 109.7 93.2 0.086 18.32 4.8 32108 32108 1 1 42.1
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 2.5 2.59 83.1 0.1 7.01
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 PDB ENTRY 1HNC 2.5 29.43 30437 1606 92.91 0.21623 0.21331 0.2085 0.27345 0.2612 RANDOM 26.211
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] -0.74 -1.16 1.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.98 r_dihedral_angle_4_deg 19.461 r_dihedral_angle_3_deg 16.017 r_dihedral_angle_1_deg 7.35 r_scangle_it 1.97 r_angle_refined_deg 1.454 r_scbond_it 1.218 r_mcangle_it 0.92 r_mcbond_it 0.557 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.98 r_dihedral_angle_4_deg 19.461 r_dihedral_angle_3_deg 16.017 r_dihedral_angle_1_deg 7.35 r_scangle_it 1.97 r_angle_refined_deg 1.454 r_scbond_it 1.218 r_mcangle_it 0.92 r_mcbond_it 0.557 r_nbtor_refined 0.306 r_nbd_refined 0.198 r_xyhbond_nbd_refined 0.144 r_symmetry_vdw_refined 0.136 r_symmetry_hbond_refined 0.136 r_chiral_restr 0.109 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7181 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 124
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling