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Crystal structure of Human galectin-3 CRD in complex with 4-fluophenyl-1,2,3-triazolyl thiodigalactoside inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NN8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 31% PEG 6000, 100MM MGCL2, 8MM BETA MERCEPTOETHANOL, 100MM TRIS HCL
Crystal Properties Matthews coefficient Solvent content 2.2 44.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.907 α = 90 b = 58.407 β = 90 c = 63.808 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 293 CCD BRUKER SMART 6000 2009-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54184
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 43.083 94.9 0.058 0.062 0.021 14.9 5.2 21521 21521
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.58 67.4 0.251 0.251 0.222 3 1.6 2152
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 2NN8 1.5 43.08 20313 1103 94.52 0.1593 0.1584 0.1598 0.1753 0.1735 RANDOM 18.076
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] 0.49 -0.36 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.91 r_dihedral_angle_4_deg 16.225 r_dihedral_angle_3_deg 10.986 r_dihedral_angle_1_deg 6.954 r_scangle_it 5.795 r_scbond_it 3.837 r_mcangle_it 2.62 r_angle_refined_deg 1.532 r_mcbond_it 1.474 r_angle_other_deg 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.91 r_dihedral_angle_4_deg 16.225 r_dihedral_angle_3_deg 10.986 r_dihedral_angle_1_deg 6.954 r_scangle_it 5.795 r_scbond_it 3.837 r_mcangle_it 2.62 r_angle_refined_deg 1.532 r_mcbond_it 1.474 r_angle_other_deg 0.81 r_mcbond_other 0.492 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1101 Nucleic Acid Atoms Solvent Atoms 158 Heterogen Atoms 46
Software Software Software Name Purpose SAINT data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing