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a rice glycosyltransferase in complex with UDP and REX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20% PEG 4000 0.1 M HEPES buffer pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.1 41.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.561 α = 90 b = 83.082 β = 90 c = 87.946 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS 6M 2019-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.978 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.39 57.56 69.4 0.04 0.998 22.5 5.8 58677
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.39 1.42 4.4 0.303 0.82 1.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.395 48.209 58628 3065 69.333 0.16 0.1586 0.1589 0.1745 0.1745 17.086
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] 1.03 -0.777 -0.253
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.436 r_dihedral_angle_4_deg 15.364 r_dihedral_angle_3_deg 11.825 r_dihedral_angle_1_deg 6.545 r_lrange_it 4.604 r_lrange_other 4.336 r_scangle_it 2.563 r_scangle_other 2.562 r_mcangle_it 1.81 r_mcangle_other 1.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.436 r_dihedral_angle_4_deg 15.364 r_dihedral_angle_3_deg 11.825 r_dihedral_angle_1_deg 6.545 r_lrange_it 4.604 r_lrange_other 4.336 r_scangle_it 2.563 r_scangle_other 2.562 r_mcangle_it 1.81 r_mcangle_other 1.81 r_scbond_it 1.631 r_scbond_other 1.631 r_angle_refined_deg 1.358 r_angle_other_deg 1.346 r_dihedral_angle_other_2_deg 1.136 r_mcbond_it 1.113 r_mcbond_other 1.099 r_nbd_refined 0.202 r_nbd_other 0.183 r_symmetry_nbd_other 0.17 r_nbtor_refined 0.159 r_symmetry_nbd_refined 0.125 r_symmetry_xyhbond_nbd_refined 0.11 r_xyhbond_nbd_refined 0.101 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.069 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3115 Nucleic Acid Atoms Solvent Atoms 482 Heterogen Atoms 119
Software Software Software Name Purpose REFMAC refinement DIALS data reduction PHASER phasing DIALS data scaling