☰ Navigation Tabs
Galectin-8 N terminal domain in complex with LNT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AP5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 10 mM sodium phosphate, 137 mM sodium chloride, 2.7 mM potassium chloride, 1.8 mM potassium phosphate
Crystal Properties Matthews coefficient Solvent content 2.58 52.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.4 α = 90 b = 49.61 β = 90 c = 80.47 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 210r 2015-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.9537 Australian Synchrotron MX1
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 1.96 42.23 93.7 0.112 14.5 7.8 12696
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3AP5 1.96 42.23 12042 599 93.61 0.17905 0.17731 0.1885 0.21492 0.2332 RANDOM 13.971
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.821 r_dihedral_angle_4_deg 10.983 r_dihedral_angle_3_deg 9.947 r_long_range_B_refined 9.038 r_long_range_B_other 9.036 r_dihedral_angle_1_deg 6.588 r_scangle_other 6.493 r_scbond_it 4.851 r_scbond_other 4.851 r_mcangle_other 3.097
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.821 r_dihedral_angle_4_deg 10.983 r_dihedral_angle_3_deg 9.947 r_long_range_B_refined 9.038 r_long_range_B_other 9.036 r_dihedral_angle_1_deg 6.588 r_scangle_other 6.493 r_scbond_it 4.851 r_scbond_other 4.851 r_mcangle_other 3.097 r_mcangle_it 3.041 r_mcbond_it 2.638 r_mcbond_other 2.479 r_angle_refined_deg 1.169 r_angle_other_deg 0.758 r_chiral_restr 0.071 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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 1178 Nucleic Acid Atoms Solvent Atoms 241 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing