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X-RAY STRUCTURE OF GLYOXALASE II FROM ARABIDOPSIS THALIANA GENE AT2G31350
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 293 10 MG/ML PROTEIN, 0.100 SODIUM ACETATE,
16 PERCENT PEG 4K, 10 PERCENT PEG 400, 0.200 GLYCINE, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 4.50
Crystal Properties Matthews coefficient Solvent content 2.32 47.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.494 α = 90 b = 58.782 β = 109.22 c = 69.049 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 CCD ADSC QUANTUM 4 BENT CYLINDRICAL SI- MIRROR (RH COATING) 2004-02-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-D APS 14-BM-D
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 1.742 33.72 97.4 0.079 21.2 7.6 51949
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) 1.74 1.8 92.9 0.545 4.34 7.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.74 33.71 49295 2630 97.7 0.142 0.14 0.1542 0.189 0.1957 RANDOM 14.89
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] 0.442 0.012 0.206 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.794 r_dihedral_angle_4_deg 18.904 r_dihedral_angle_3_deg 14.118 r_scangle_it 6.477 r_dihedral_angle_1_deg 6.249 r_scbond_it 4.976 r_sphericity_bonded 2.927 r_mcangle_it 2.633 r_mcbond_it 2.284 r_sphericity_free 2.033
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.794 r_dihedral_angle_4_deg 18.904 r_dihedral_angle_3_deg 14.118 r_scangle_it 6.477 r_dihedral_angle_1_deg 6.249 r_scbond_it 4.976 r_sphericity_bonded 2.927 r_mcangle_it 2.633 r_mcbond_it 2.284 r_sphericity_free 2.033 r_angle_refined_deg 1.746 r_angle_other_deg 0.884 r_mcbond_other 0.379 r_symmetry_vdw_refined 0.28 r_symmetry_hbond_refined 0.237 r_nbd_refined 0.229 r_symmetry_vdw_other 0.209 r_nbd_other 0.185 r_xyhbond_nbd_refined 0.184 r_nbtor_refined 0.179 r_metal_ion_refined 0.116 r_chiral_restr 0.107 r_nbtor_other 0.087 r_bond_refined_d 0.02 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_rigid_bond_restr
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4027 Nucleic Acid Atoms Solvent Atoms 562 Heterogen Atoms 4
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing ARP/wARP model building RESOLVE phasing REFMAC refinement