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Structure of Galectin-3 CRD in complex with compound 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZSL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 100mM Tris HCl pH7.5; 30-34% PEG4000; 100mM MgCl2; 400mM NaSCN; 8mM beta-mercaptoethanol
Crystal Properties Matthews coefficient Solvent content 2.04 39.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.87 α = 90 b = 57.95 β = 90 c = 62.98 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 6M 2012-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.980 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 1.87 50 99.3 0.055 22.17 6.2 11662
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.87 1.98 0.144
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3ZSL 1.87 31.82 11078 584 99.34 0.14804 0.14465 0.1558 0.21375 0.2252 RANDOM 21.476
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] 1.69 -1.07 -0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.36 r_dihedral_angle_3_deg 13.188 r_dihedral_angle_4_deg 12.517 r_dihedral_angle_1_deg 7.392 r_long_range_B_refined 6.318 r_long_range_B_other 6.242 r_scangle_other 4.944 r_scbond_it 3.246 r_scbond_other 3.246 r_mcangle_other 2.477
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.36 r_dihedral_angle_3_deg 13.188 r_dihedral_angle_4_deg 12.517 r_dihedral_angle_1_deg 7.392 r_long_range_B_refined 6.318 r_long_range_B_other 6.242 r_scangle_other 4.944 r_scbond_it 3.246 r_scbond_other 3.246 r_mcangle_other 2.477 r_mcangle_it 2.47 r_angle_refined_deg 1.959 r_mcbond_it 1.756 r_mcbond_other 1.731 r_angle_other_deg 0.872 r_chiral_restr 0.127 r_bond_refined_d 0.019 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1108 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing