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Characterization and engineering of the bifunctional N- and O- glucosyltransferase involved in xenobiotic metabolism in plants
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ACV PDB ENTRY 1ACV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 23 % (W/V) PEG 3350, 0.1 M MMT (MALIC ACID, MES, TRIS BUFFER) PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.4 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.68 α = 90 b = 94.006 β = 110.24 c = 56.992 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 120 CCD ADSC CCD 2006-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 1.45 53.45 99.9 0.05 16.9 4.2 83274 2
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 1.45 1.53 99.4 0.22 5.5 3.8
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 1ACV 1.45 53.45 78900 4153 99.8 0.179 0.178 0.1713 0.196 0.1919 RANDOM 14.12
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] -0.23 -0.02 0.72 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.076 r_dihedral_angle_4_deg 15.312 r_dihedral_angle_3_deg 12.749 r_dihedral_angle_1_deg 5.712 r_scangle_it 3.627 r_scbond_it 2.413 r_mcangle_it 1.694 r_angle_refined_deg 1.627 r_mcbond_it 1.111 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.076 r_dihedral_angle_4_deg 15.312 r_dihedral_angle_3_deg 12.749 r_dihedral_angle_1_deg 5.712 r_scangle_it 3.627 r_scbond_it 2.413 r_mcangle_it 1.694 r_angle_refined_deg 1.627 r_mcbond_it 1.111 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.239 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.144 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.103 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 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 3570 Nucleic Acid Atoms Solvent Atoms 444 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing