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Galectin-1 in Complex with Methyl 2'-fluoro-N-acetyllactosaminide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3T2T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 COUNTER-DIFFUSION 291 0.1M Tris-Cl, pH8, 0.2M lithium sulfate, 30% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.4 48.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.25 α = 90 b = 58.27 β = 90 c = 111.82 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 2021-10-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
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 1.425 45 99.4 0.086 1 16.64 12.8 54461 31
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 1.43 1.51 96.5 3.902 0.46 12.6
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.425 41.179 54445 2718 99.35 0.167 0.1645 0.1657 0.22 0.2216 29.676
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] 1.079 -1.16 0.081
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 20.372 r_lrange_other 19.762 r_scangle_it 16.005 r_scangle_other 16 r_dihedral_angle_6_deg 15.118 r_dihedral_angle_3_deg 12.898 r_mcangle_other 12.338 r_mcangle_it 12.337 r_scbond_it 11.702 r_scbond_other 11.698
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 20.372 r_lrange_other 19.762 r_scangle_it 16.005 r_scangle_other 16 r_dihedral_angle_6_deg 15.118 r_dihedral_angle_3_deg 12.898 r_mcangle_other 12.338 r_mcangle_it 12.337 r_scbond_it 11.702 r_scbond_other 11.698 r_dihedral_angle_2_deg 10.334 r_mcbond_it 9.087 r_mcbond_other 9.083 r_dihedral_angle_1_deg 7.311 r_rigid_bond_restr 5.415 r_angle_refined_deg 1.926 r_angle_other_deg 0.688 r_nbd_refined 0.219 r_symmetry_nbd_refined 0.21 r_symmetry_xyhbond_nbd_refined 0.209 r_symmetry_nbd_other 0.201 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.167 r_nbd_other 0.155 r_chiral_restr 0.099 r_symmetry_nbtor_other 0.089 r_chiral_restr_other 0.047 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2055 Nucleic Acid Atoms Solvent Atoms 280 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing