☰ Navigation Tabs
Ca2+-independent C-type lectin SPL-2 from Saxidomus purpuratus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 293 0.2 M lithium sulfate, 0.1 M Tris-HCl (pH8.5), 30% PEG4000, 100 mM GalNAc, 10 mM CaCl2
Crystal Properties Matthews coefficient Solvent content 3.28 62.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.235 α = 90 b = 91.235 β = 90 c = 48.791 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 PIXEL DECTRIS PILATUS3 2M 2016-05-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.000 Photon Factory AR-NW12A
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 2 50 99.9 0.068 39.6 10.9 16065
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 2 2.03 0.462
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 2 30.72 15278 765 99.76 0.18079 0.17943 0.189 0.20745 0.2199 RANDOM 39.559
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.188 r_dihedral_angle_4_deg 19.149 r_dihedral_angle_3_deg 14.322 r_dihedral_angle_1_deg 9.28 r_long_range_B_refined 7.39 r_long_range_B_other 7.383 r_scangle_other 5.886 r_mcangle_it 4.696 r_mcangle_other 4.693 r_scbond_it 4.348
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.188 r_dihedral_angle_4_deg 19.149 r_dihedral_angle_3_deg 14.322 r_dihedral_angle_1_deg 9.28 r_long_range_B_refined 7.39 r_long_range_B_other 7.383 r_scangle_other 5.886 r_mcangle_it 4.696 r_mcangle_other 4.693 r_scbond_it 4.348 r_scbond_other 4.208 r_mcbond_it 3.687 r_mcbond_other 3.67 r_angle_refined_deg 1.784 r_angle_other_deg 1.175 r_chiral_restr 0.128 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1106 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing