☰ Navigation Tabs
Crystal structure of human TLR8 in complex with uridine mononucleoside
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.8 293 12-14% (w/v) PEG 3350, 0.2-0.3M potassium formate, 0.1M sodium citrate pH 4.8
, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.27 45.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.444 α = 90 b = 133.319 β = 90 c = 120.039 γ = 90
Symmetry Space Group C 2 2 21
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 PILATUS 6M 2013-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 50 98.9 0.067 22.5 3.6 59446
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 1.9 48.58 61985 3309 98.34 0.20299 0.20005 0.2071 0.25977 0.2651 RANDOM 36.785
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] -0.02 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.348 r_dihedral_angle_4_deg 18.297 r_dihedral_angle_3_deg 17.197 r_long_range_B_other 8.552 r_long_range_B_refined 8.551 r_dihedral_angle_1_deg 8.365 r_scangle_other 6.551 r_mcangle_other 5.166 r_mcangle_it 5.165 r_scbond_it 4.665
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.348 r_dihedral_angle_4_deg 18.297 r_dihedral_angle_3_deg 17.197 r_long_range_B_other 8.552 r_long_range_B_refined 8.551 r_dihedral_angle_1_deg 8.365 r_scangle_other 6.551 r_mcangle_other 5.166 r_mcangle_it 5.165 r_scbond_it 4.665 r_scbond_other 4.654 r_mcbond_it 3.852 r_mcbond_other 3.849 r_angle_refined_deg 1.648 r_angle_other_deg 0.872 r_chiral_restr 0.103 r_bond_refined_d 0.013 r_gen_planes_refined 0.012 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 5994 Nucleic Acid Atoms Solvent Atoms 330 Heterogen Atoms 243
Software Software Software Name Purpose MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling