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Human galectin 1 in complex with inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Q27
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M Tris pH 8, 28% PEG3350, 0.1 M Li2SO4, 1% beta-mercapthoethanol
Crystal Properties Matthews coefficient Solvent content 2.78 55.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.35 α = 90 b = 61.96 β = 90 c = 100.73 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 2017-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.918 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 52.78 99.8 0.041 0.999 20.3 5.4 36768
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.71 1.74 0.672 0.842
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 1.71 52.775 36768 1863 99.799 0.169 0.1675 0.1697 0.2063 0.208 30.499
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] -1.615 2.583 -0.968
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.725 r_dihedral_angle_3_deg 12.628 r_lrange_it 7.758 r_lrange_other 7.685 r_dihedral_angle_1_deg 7.432 r_dihedral_angle_2_deg 6.444 r_scangle_it 5.641 r_scangle_other 5.639 r_scbond_it 3.757 r_scbond_other 3.757
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.725 r_dihedral_angle_3_deg 12.628 r_lrange_it 7.758 r_lrange_other 7.685 r_dihedral_angle_1_deg 7.432 r_dihedral_angle_2_deg 6.444 r_scangle_it 5.641 r_scangle_other 5.639 r_scbond_it 3.757 r_scbond_other 3.757 r_mcangle_it 3.349 r_mcangle_other 3.348 r_mcbond_it 2.298 r_mcbond_other 2.298 r_angle_refined_deg 1.928 r_angle_other_deg 0.637 r_chiral_restr 0.325 r_nbd_refined 0.203 r_symmetry_xyhbond_nbd_refined 0.203 r_xyhbond_nbd_refined 0.197 r_symmetry_xyhbond_nbd_other 0.197 r_symmetry_nbd_other 0.192 r_nbtor_refined 0.18 r_nbd_other 0.166 r_symmetry_nbd_refined 0.154 r_ncsr_local_group_1 0.098 r_symmetry_nbtor_other 0.09 r_bond_refined_d 0.011 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 2058 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing