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Galectin-3 with a small molecule inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Internal structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 2.1 M DL-Malic acid pH 7.0
Crystal Properties Matthews coefficient Solvent content 1.95 36.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.5 α = 90 b = 57.34 β = 90 c = 61.95 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 2M 2022-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.00 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 42.081 99.7 0.081 0.998 8.66 3.46 37873
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.59 2.02 0.257 0.65
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 30.994 20294 1038 99.926 0.168 0.166 0.1733 0.2163 0.2307 25.62
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] -2.415 3.498 -1.083
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 15.736 r_lrange_other 15.587 r_dihedral_angle_6_deg 14.57 r_dihedral_angle_3_deg 13.284 r_scangle_it 12.931 r_scangle_other 12.924 r_scbond_it 9.385 r_scbond_other 9.378 r_mcangle_other 9.356 r_mcangle_it 9.355
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 15.736 r_lrange_other 15.587 r_dihedral_angle_6_deg 14.57 r_dihedral_angle_3_deg 13.284 r_scangle_it 12.931 r_scangle_other 12.924 r_scbond_it 9.385 r_scbond_other 9.378 r_mcangle_other 9.356 r_mcangle_it 9.355 r_dihedral_angle_1_deg 7.737 r_mcbond_it 7.222 r_mcbond_other 7.203 r_dihedral_angle_2_deg 5.552 r_rigid_bond_restr 4.23 r_chiral_restr_other 1.685 r_angle_refined_deg 1.653 r_angle_other_deg 0.585 r_nbd_refined 0.195 r_symmetry_nbd_other 0.195 r_nbd_other 0.187 r_nbtor_refined 0.166 r_symmetry_nbd_refined 0.166 r_xyhbond_nbd_refined 0.134 r_symmetry_xyhbond_nbd_refined 0.132 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1108 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction XSCALE data scaling PHASER phasing