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Crystal structure of Human Galectin-3 CRD in complex with Lactose (native)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZSJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291.15 0.1 M Tris-HCl pH 7.5, 33% w/v PEG 6000, 0.1 M Magnesium chloride, 0.008 M 2-mercaptoethanol
Crystal Properties Matthews coefficient Solvent content 1.94 36.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.517 α = 90 b = 57.016 β = 90 c = 61.342 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 2023-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS SIRIUS BEAMLINE MANACA 0.97718 LNLS SIRIUS MANACA
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 1.1 41.76 98.66 0.04953 0.999 24.92 11.5 49254 10.58
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 1.1 1.139 87.44 0.4579 0.873 2.93 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.1 41.76 1.35 49252 2463 98.65 0.1309 0.1298 0.1299 0.151 0.1514 16.83
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.7344 f_angle_d 1.232 f_chiral_restr 0.3499 f_plane_restr 0.0111 f_bond_d 0.0095
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1116 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 69
Software Software Software Name Purpose PHENIX refinement PHASER phasing XDS data scaling XDS data reduction MxCuBE data collection