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Glutathione transferase A3-3 in complex with glutathione and delta-4- androstene-3-17-dione
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TDI PDB ENTRY 1TDI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 HANGING VAPOUR DROP TECHIQUE WAS USED. 5 UL OF RESERVOIR SOLUTION [100 MM TRIS-HCL PH 7.8, 18% (V/V) PEG 4000, AND 2 MM DITHIOTHREITOL] WAS MIXED WITH 5 UL OF PROTEIN SOLUTION (10 MG/ML IN 10 MM TRIS-HCL PH 7.8), 1UL OF 200 MM SPERMINE AND 1UL OF 25 MM ANDROSTENE DIONE.
Crystal Properties Matthews coefficient Solvent content 2.09 40.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.177 α = 89.76 b = 92.064 β = 89.72 c = 113.54 γ = 89.73
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 CCD SAGITALLY FOCUSING GE(220) AND A MULTILAYER 2006-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.8 20 94.9 0.07 8 1.9 338219 1.9 17.4
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 1.8 1.9 93.6 0.38 1.9 1.9
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 1TDI 1.8 20 304874 16208 94.9 0.225 0.223 0.2246 0.267 0.2687 RANDOM 20.44
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] 1.93 -0.03 -0.08 -1.13 0.23 -0.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.486 r_dihedral_angle_3_deg 15.642 r_dihedral_angle_4_deg 14.976 r_dihedral_angle_1_deg 5.2 r_scangle_it 2.008 r_angle_refined_deg 1.331 r_scbond_it 1.308 r_mcangle_it 0.835 r_mcbond_it 0.503 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.486 r_dihedral_angle_3_deg 15.642 r_dihedral_angle_4_deg 14.976 r_dihedral_angle_1_deg 5.2 r_scangle_it 2.008 r_angle_refined_deg 1.331 r_scbond_it 1.308 r_mcangle_it 0.835 r_mcbond_it 0.503 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.217 r_nbd_refined 0.195 r_symmetry_hbond_refined 0.168 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.084 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_mcangle_other r_scbond_other 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 28208 Nucleic Acid Atoms Solvent Atoms 3263 Heterogen Atoms 551
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing