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Xray structure of rat Galectin-3 CRD in complex with TD-139 belonging to P121 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7CXA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 24-35% PEG 4000/6000, 0.1M Tris (pH 7.5 to pH 8.5), 0.1M MgCl2, 0.4M NaSCN
Crystal Properties Matthews coefficient Solvent content 1.95 36.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.241 α = 90 b = 58.712 β = 113.85 c = 70.773 γ = 90
Symmetry Space Group P 1 21 1
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 9M 2017-02-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.078 APS 21-ID-D
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 1.71 61.5 87.9 0.074 0.087 0.045 0.995 9.3 3.6 48235 27.23
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 1.71 1.8 94.7 0.441 0.516 0.267 0.911 3.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 7CXA 1.71 41.17 48234 2405 87.9 0.227 0.226 0.248 0.2855 RANDOM 31.73
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] 10.4427 0.9086 1.9702 -12.4128
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 15.79 t_omega_torsion 3.91 t_angle_deg 1.19 t_bond_d 0.01 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 15.79 t_omega_torsion 3.91 t_angle_deg 1.19 t_bond_d 0.01 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4287 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 305
Software Software Software Name Purpose BUSTER refinement Aimless data scaling PDB_EXTRACT data extraction MOSFLM data reduction PHASER phasing