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AO75L in Complex with UDP-Xylose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8ASA 8ASA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.1 291.15 0.1M TRIS; 0.1M BICINE, pH 8.1
37.5% Morpheus Precipitant mix4
0.03M CaCl2;0.03M MgCl2
Crystal Properties Matthews coefficient Solvent content 2.4 48.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.285 α = 90 b = 130.427 β = 118.01 c = 87.143 γ = 90
Symmetry Space Group C 1 2 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 PILATUS 6M 2020-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9795 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2 85.9 99.4 0.089 0.105 0.997 10.6 3.536 169521 43.435
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.12 98.4 1.049 1.248 0.425 1.23 3.368
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 8ASA 2 85.9 81495 4312 99.89 0.1972 0.1956 0.2028 0.2266 0.2354 RANDOM 38.184
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] -0.95 -0.21 0.27 0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.767 r_dihedral_angle_4_deg 15.327 r_dihedral_angle_3_deg 13.753 r_dihedral_angle_1_deg 6.862 r_angle_refined_deg 1.175 r_angle_other_deg 1.089 r_chiral_restr 0.047 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.767 r_dihedral_angle_4_deg 15.327 r_dihedral_angle_3_deg 13.753 r_dihedral_angle_1_deg 6.862 r_angle_refined_deg 1.175 r_angle_other_deg 1.089 r_chiral_restr 0.047 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9390 Nucleic Acid Atoms Solvent Atoms 781 Heterogen Atoms 314
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing