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Amuc0121_S1_15 in complex with O6 sulfated D-Galactose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Morpheus D12-
37. 5 % Precipitant mix 4(25% v/v MPD; 25% PEG 1000; 25% w/v PEG 3350),
0.1 M Buffer system 3 pH 8.5 (Tris (base); BICINE),
0.12 M Alcohols (0.2M 1,6-Hexanediol; 0.2M 1-Butanol
0.2M 1,2-Propanediol; 0.2M 2-Propanol; 0.2M 1,4-Butanediol; 0.2M 1,3-Propanediol).
36 mg/ml Amuc0121_C78S, 10 mM O6 sulfated D-galactose
Crystal Properties Matthews coefficient Solvent content 2.22 44.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.055 α = 90 b = 91.127 β = 90 c = 160.101 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 EIGER2 S 16M 2025-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97625 Diamond I04
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 1.8 60.27 100 0.996 8 13.6 1210143
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 1.8 1.83 0.446
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 FREE R-VALUE 1.8 60.27 88932 4555 99.998 0.187 0.185 0.193 0.2205 0.2253 25.551
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] 0.095 0.537 -0.632
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.258 r_dihedral_angle_3_deg 14.275 r_dihedral_angle_2_deg 9.991 r_dihedral_angle_1_deg 6.855 r_lrange_it 5.289 r_lrange_other 5.277 r_scangle_it 4.345 r_scangle_other 4.345 r_scbond_other 2.723 r_scbond_it 2.722
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.258 r_dihedral_angle_3_deg 14.275 r_dihedral_angle_2_deg 9.991 r_dihedral_angle_1_deg 6.855 r_lrange_it 5.289 r_lrange_other 5.277 r_scangle_it 4.345 r_scangle_other 4.345 r_scbond_other 2.723 r_scbond_it 2.722 r_mcangle_it 2.432 r_mcangle_other 2.432 r_mcbond_it 1.67 r_mcbond_other 1.667 r_angle_refined_deg 1.584 r_angle_other_deg 0.545 r_symmetry_nbd_refined 0.217 r_symmetry_xyhbond_nbd_refined 0.216 r_nbd_refined 0.209 r_symmetry_nbd_other 0.197 r_nbd_other 0.182 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.125 r_symmetry_nbtor_other 0.082 r_chiral_restr 0.074 r_metal_ion_refined 0.067 r_gen_planes_refined 0.007 r_bond_refined_d 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7507 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing