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Human galectin 3 apo in ammonium formate buffer
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XBN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20%Peg 3350, 200mM ammonium formate
Crystal Properties Matthews coefficient Solvent content 2.04 39.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.471 α = 90 b = 57.658 β = 90 c = 62.275 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 16M 2026-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9677 ESRF ID30B
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 1.09 31.47 98.6 0.107 0.122 0.059 0.989 10.6 7.9 54684
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.09 1.11 86.3 0.855 1.065 0.624 0.661 3 4.9
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.09 31.47 54613 2834 98.357 0.134 0.1334 0.1339 0.1525 0.1522 RANDOM 10.584
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] 0.237 0.002 -0.24
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 16.018 r_lrange_other 14.406 r_dihedral_angle_6_deg 13.932 r_dihedral_angle_3_deg 12.037 r_scangle_it 8.51 r_scangle_other 8.505 r_dihedral_angle_1_deg 7.493 r_dihedral_angle_2_deg 7.188 r_scbond_it 6.548 r_scbond_other 6.543
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 16.018 r_lrange_other 14.406 r_dihedral_angle_6_deg 13.932 r_dihedral_angle_3_deg 12.037 r_scangle_it 8.51 r_scangle_other 8.505 r_dihedral_angle_1_deg 7.493 r_dihedral_angle_2_deg 7.188 r_scbond_it 6.548 r_scbond_other 6.543 r_mcangle_it 4.908 r_mcangle_other 4.907 r_mcbond_it 3.51 r_mcbond_other 3.506 r_rigid_bond_restr 1.539 r_angle_refined_deg 1.391 r_angle_other_deg 0.517 r_symmetry_xyhbond_nbd_refined 0.474 r_symmetry_nbd_refined 0.326 r_xyhbond_nbd_refined 0.246 r_nbd_refined 0.212 r_symmetry_nbd_other 0.193 r_nbd_other 0.187 r_nbtor_refined 0.166 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.074 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1130 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms
Software Software Software Name Purpose Aimless data scaling DIALS data reduction gemmi data extraction REFMAC refinement Aimless data scaling DIALS data reduction gemmi data extraction REFMAC refinement PHASER phasing