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Crystal structure of human TLR8 in complex with MB-564
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 PEG3350, potassium formate, sodium citrate
Crystal Properties Matthews coefficient Solvent content 2.99 58.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.401 α = 90 b = 140.175 β = 90.47 c = 169.603 γ = 90
Symmetry Space Group P 1 21 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 PILATUS 6M 2015-04-16 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) 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 2.5 50 95.3 10.9 3.4 126078
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 THROUGHOUT 2.5 47.483 125875 6666 94.71 0.21183 0.2088 0.2118 0.2686 0.2669 RANDOM 60.053
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 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.418 r_dihedral_angle_3_deg 17.1 r_dihedral_angle_4_deg 16.661 r_long_range_B_refined 8.706 r_long_range_B_other 8.705 r_dihedral_angle_1_deg 7.187 r_scangle_other 6.055 r_mcangle_it 5.91 r_mcangle_other 5.909 r_mcbond_it 3.863
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.418 r_dihedral_angle_3_deg 17.1 r_dihedral_angle_4_deg 16.661 r_long_range_B_refined 8.706 r_long_range_B_other 8.705 r_dihedral_angle_1_deg 7.187 r_scangle_other 6.055 r_mcangle_it 5.91 r_mcangle_other 5.909 r_mcbond_it 3.863 r_mcbond_other 3.863 r_scbond_it 3.807 r_scbond_other 3.807 r_angle_refined_deg 1.531 r_angle_other_deg 0.829 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002 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 23721 Nucleic Acid Atoms Solvent Atoms 123 Heterogen Atoms 634
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing