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Crystal structure of Lolium rigidum GSTF in complex with S-(p-nitrobenzyl) glutathione
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BYE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 289 20% w/v Sokalan PA 25CL, 0.1 M Hepes, 0.1 M Sodium tartrate
Crystal Properties Matthews coefficient Solvent content 2.66 53.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.562 α = 90 b = 98.5 β = 109.126 c = 95.9 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER X 16M 2018-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9762 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1.9 66.7 98.3 0.113 0.998 7.4 3.9 126047 21.15
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.93 91.5 0.862 0.583 0.843 1.4 3.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1bye 1.9 66.68 1.34 125811 1829 98.31 0.1649 0.1643 0.2029 0.191 35.89
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 7.0866 f_angle_d 0.8321 f_chiral_restr 0.0517 f_bond_d 0.0067 f_plane_restr 0.0062
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10508 Nucleic Acid Atoms Solvent Atoms 1073 Heterogen Atoms 239
Software Software Software Name Purpose PHENIX refinement XDS data processing Aimless data scaling PHASER phasing XDS data reduction