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Galectin-3 in complex with thiogalactoside derivative
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other unpublished structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 291 30 % PEG 4000, 0.1 M Tris pH 7.5, 0.2 M magnesiumchloride, 0.4 M sodium thiocyanate, 8 mM beta-mercaptoethanol
Crystal Properties Matthews coefficient Solvent content 2.04 39.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.96 α = 90 b = 57.311 β = 90 c = 62.234 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 EIGER X 16M 2020-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.8266 MAX IV BioMAX
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 1.1 42.16 100 0.047 1 14.9 6.4 53036
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 1.1 1.12 0.899
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 1.1 42.158 52950 2732 99.934 0.107 0.1053 0.1055 0.1298 0.13 13.565
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] 0.37 -0.26 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.279 r_dihedral_angle_3_deg 12.378 r_dihedral_angle_4_deg 10.821 r_dihedral_angle_1_deg 7.726 r_rigid_bond_restr 4.487 r_lrange_it 3.117 r_scangle_it 2.832 r_scangle_other 2.831 r_lrange_other 2.726 r_scbond_it 2.364
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.279 r_dihedral_angle_3_deg 12.378 r_dihedral_angle_4_deg 10.821 r_dihedral_angle_1_deg 7.726 r_rigid_bond_restr 4.487 r_lrange_it 3.117 r_scangle_it 2.832 r_scangle_other 2.831 r_lrange_other 2.726 r_scbond_it 2.364 r_scbond_other 2.363 r_angle_refined_deg 2.192 r_angle_other_deg 1.537 r_mcangle_other 1.246 r_mcangle_it 1.245 r_mcbond_it 1.099 r_mcbond_other 1.089 r_symmetry_nbd_refined 0.283 r_nbd_refined 0.279 r_nbd_other 0.271 r_symmetry_xyhbond_nbd_refined 0.264 r_xyhbond_nbd_refined 0.194 r_symmetry_nbd_other 0.193 r_nbtor_refined 0.17 r_chiral_restr 0.126 r_symmetry_nbtor_other 0.096 r_bond_refined_d 0.018 r_gen_planes_refined 0.014 r_gen_planes_other 0.006 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1106 Nucleic Acid Atoms Solvent Atoms 200 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling REFMAC phasing