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Structure of a lectin from the seeds of Vatairea macrocarpa complexed with GalNAc
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 3.5 293 Citric acid buffer, ammonium sulphate
Crystal Properties Matthews coefficient Solvent content 2.88 57.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.262 α = 90 b = 85.52 β = 90 c = 129.416 γ = 90
Symmetry Space Group I 2 2 2
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 PSI PILATUS 6M 2012-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.872 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.74 71.35 99.2 0.123 0.124 4.1 5.5 32066
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 1.74 1.84 94.3 0.54 2.9
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 MOLECULAR REPLACEMENT THROUGHOUT 1.74 71.35 32066 1619 99.12 0.1631 0.1617 0.1679 0.1882 0.1905 RANDOM 14.795
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] 0.37 0.98 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.637 r_dihedral_angle_4_deg 19.857 r_dihedral_angle_3_deg 12.9 r_dihedral_angle_1_deg 6.742 r_mcangle_it 2.632 r_angle_refined_deg 2.056 r_mcbond_it 1.762 r_mcbond_other 1.668 r_angle_other_deg 0.889 r_chiral_restr 0.126
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.637 r_dihedral_angle_4_deg 19.857 r_dihedral_angle_3_deg 12.9 r_dihedral_angle_1_deg 6.742 r_mcangle_it 2.632 r_angle_refined_deg 2.056 r_mcbond_it 1.762 r_mcbond_other 1.668 r_angle_other_deg 0.889 r_chiral_restr 0.126 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1777 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 57
Software Software Software Name Purpose REFMAC refinement