☰ Navigation Tabs
Crystal structure of Ochrobactrum anthropi glutathione transferase Cys10Ala mutant with glutathione bound at the H-site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NTO PDB ENTRY 2NTO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 294 2.0 M ammonium sulfate, 100 mM Tris-HCl, 200 mM Lithium sulfate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.42 49.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.373 α = 90 b = 58.373 β = 90 c = 214.023 γ = 120
Symmetry Space Group P 61 2 2
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 315 2006-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.934 ESRF ID23-1
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 1.803 50.64 99.8 0.085 16 66.6 20967 20967 2 1 23.056
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 1.803 1.86 100 0.401 3.51 8.2 2032
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 2NTO 1.803 50.64 2 20967 19866 1074 99.87 0.20006 0.19762 0.2102 0.24772 0.2558 RANDOM 25.56
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] 1.77 0.89 1.77 -2.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.117 r_scangle_it 2.899 r_scbond_it 1.862 r_angle_refined_deg 1.303 r_mcangle_it 1.093 r_angle_other_deg 0.807 r_mcbond_it 0.662 r_symmetry_vdw_other 0.333 r_nbd_other 0.25 r_symmetry_vdw_refined 0.245
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.117 r_scangle_it 2.899 r_scbond_it 1.862 r_angle_refined_deg 1.303 r_mcangle_it 1.093 r_angle_other_deg 0.807 r_mcbond_it 0.662 r_symmetry_vdw_other 0.333 r_nbd_other 0.25 r_symmetry_vdw_refined 0.245 r_nbd_refined 0.227 r_xyhbond_nbd_refined 0.19 r_symmetry_hbond_refined 0.147 r_nbtor_other 0.086 r_chiral_restr 0.074 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1534 Nucleic Acid Atoms Solvent Atoms 215 Heterogen Atoms 30
Software Software Software Name Purpose ADSC data collection FFT model building REFMAC refinement DENZO data reduction SCALEPACK data scaling FFT phasing