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Arabidopsis thaliana DGD2 in complex with UDP-galactose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M bicine/Trizma base pH 8.5, 12.5% w/v PEG 1000, 12.5% w/v PEG 3350, 12.5% v/v MPD, 0.02M 1,3-Propanediol, 0.02M 1,4-Butanediol, 0.02M 1,6-Hexanediol, 0.02M 1-Butanol, 0.02M 2-Propanol
Crystal Properties Matthews coefficient Solvent content 2.03 39.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.032 α = 90 b = 44.032 β = 90 c = 368.478 γ = 90
Symmetry Space Group P 41 21 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 PIXEL DECTRIS EIGER2 X 16M 2017-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.98 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.1 92.29 99.1 1 20.5 58 22546
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.16 0.488
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 2.1 92.29 21090 1154 98.14 0.2061 0.20325 0.2122 0.25658 0.2599 RANDOM 52.626
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] 0.86 0.86 -1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.499 r_dihedral_angle_2_deg 13.625 r_long_range_B_refined 9.81 r_long_range_B_other 9.802 r_dihedral_angle_1_deg 8.343 r_scangle_other 8.272 r_scbond_other 6.036 r_scbond_it 6.032 r_mcangle_other 5.809 r_mcangle_it 5.808
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.499 r_dihedral_angle_2_deg 13.625 r_long_range_B_refined 9.81 r_long_range_B_other 9.802 r_dihedral_angle_1_deg 8.343 r_scangle_other 8.272 r_scbond_other 6.036 r_scbond_it 6.032 r_mcangle_other 5.809 r_mcangle_it 5.808 r_mcbond_other 4.325 r_mcbond_it 4.324 r_angle_refined_deg 2.211 r_angle_other_deg 0.705 r_chiral_restr 0.104 r_bond_refined_d 0.014 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2937 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling AutoSol phasing