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Crystal Structure of human galectin-9 NCRD with Selenolactose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 289 PEG 6000, 100mM Tris-HCl, pH 7.5, VAPOR DIFFUSION, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.14 42.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.732 α = 90 b = 68.167 β = 90 c = 224.156 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 CCD ADSC QUANTUM 270 2011-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.97889 Photon Factory BL-17A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.4 43.3 100 0.086 19.3 14 109389 109285
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 99.9 0.885 3.3 13.7 5393
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.4 40 103811 5463 99.99 0.17332 0.17224 0.1714 0.194 0.1929 RANDOM 15.248
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] 0.17 -0.49 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.136 r_dihedral_angle_3_deg 9.849 r_dihedral_angle_4_deg 9.638 r_dihedral_angle_1_deg 7.104 r_long_range_B_refined 5.467 r_long_range_B_other 5.466 r_scangle_other 2.206 r_angle_refined_deg 1.736 r_scbond_it 1.549 r_scbond_other 1.548
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.136 r_dihedral_angle_3_deg 9.849 r_dihedral_angle_4_deg 9.638 r_dihedral_angle_1_deg 7.104 r_long_range_B_refined 5.467 r_long_range_B_other 5.466 r_scangle_other 2.206 r_angle_refined_deg 1.736 r_scbond_it 1.549 r_scbond_other 1.548 r_mcangle_it 1.028 r_mcangle_other 1.028 r_angle_other_deg 0.805 r_mcbond_it 0.693 r_mcbond_other 0.693 r_chiral_restr 0.109 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4456 Nucleic Acid Atoms Solvent Atoms 869 Heterogen Atoms 120
Software Software Software Name Purpose ADSC data collection PHENIX model building REFMAC refinement XDS data reduction Aimless data scaling PHENIX phasing