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Crystal structure of human TLR8 in complex with ORN06
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.2 12-14% (w/v) PEG 3350, 0.2-0.3M potassium formate, 0.1M sodium citrate pH 5.2, VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.79 55.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.66 α = 90 b = 141.12 β = 90.59 c = 169.53 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 2012-07-02 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 2 35.29 97.6 0.107 9.8 4.4 267529
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 33.74 253971 13522 97.52 0.19011 0.18777 0.1946 0.23374 0.2372 RANDOM 41.967
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.025 r_dihedral_angle_4_deg 17.797 r_dihedral_angle_3_deg 16.756 r_long_range_B_refined 8.584 r_long_range_B_other 8.551 r_dihedral_angle_1_deg 8.115 r_scangle_other 6.626 r_mcangle_it 5.166 r_mcangle_other 5.166 r_scbond_it 4.557
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.025 r_dihedral_angle_4_deg 17.797 r_dihedral_angle_3_deg 16.756 r_long_range_B_refined 8.584 r_long_range_B_other 8.551 r_dihedral_angle_1_deg 8.115 r_scangle_other 6.626 r_mcangle_it 5.166 r_mcangle_other 5.166 r_scbond_it 4.557 r_scbond_other 4.557 r_mcbond_it 3.757 r_mcbond_other 3.756 r_angle_refined_deg 1.625 r_angle_other_deg 0.69 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 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 23834 Nucleic Acid Atoms Solvent Atoms 1434 Heterogen Atoms 965
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling