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Cysteine-less human Galectin-3 C173S mutant carbohydrate recognition domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A3K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 22% (w/v) sodium polyacrylamide 5100, 0.02M magnesium chloride, 0.1M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.16 43.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.02 α = 90 b = 58.047 β = 90 c = 63.184 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 X CdTe 16M 2024-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.961107 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.5 58.05 99.8 0.11 0.12 0.045 0.998 9.5 7 22417 10.4
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 1.5 1.53 99.9 0.715 7.1
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 1.5 42.746 22354 1019 99.546 0.162 0.1606 0.1606 0.1859 0.1858 17.507
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] 1.736 -1.096 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.482 r_dihedral_angle_4_deg 12.349 r_dihedral_angle_3_deg 11.365 r_dihedral_angle_1_deg 7.618 r_lrange_it 5.782 r_lrange_other 5.217 r_scangle_it 4.154 r_scangle_other 4.151 r_scbond_it 2.77 r_scbond_other 2.769
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.482 r_dihedral_angle_4_deg 12.349 r_dihedral_angle_3_deg 11.365 r_dihedral_angle_1_deg 7.618 r_lrange_it 5.782 r_lrange_other 5.217 r_scangle_it 4.154 r_scangle_other 4.151 r_scbond_it 2.77 r_scbond_other 2.769 r_mcangle_other 1.961 r_mcangle_it 1.96 r_angle_refined_deg 1.763 r_angle_other_deg 1.392 r_mcbond_it 1.368 r_mcbond_other 1.363 r_nbd_refined 0.196 r_xyhbond_nbd_refined 0.171 r_nbtor_refined 0.157 r_symmetry_nbd_other 0.152 r_nbd_other 0.149 r_symmetry_xyhbond_nbd_refined 0.134 r_chiral_restr 0.082 r_symmetry_nbd_refined 0.08 r_symmetry_nbtor_other 0.069 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1108 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing