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Crystal structure of the N-terminal fragment of zebrafish TLR5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 20% MPD, 0.1 M Hepes pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 5.16 76.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.33 α = 90 b = 98.33 β = 90 c = 195.103 γ = 90
Symmetry Space Group P 43 21 2
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 MARMOSAIC 325 mm CCD 2010-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.9795 SSRL BL11-1
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 2.83 20 0.074 5.3 22951 22951
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 2.83 2.93 98.9 0.544 5.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2.83 20 22939 21758 1181 97.69 0.20556 0.20386 0.2002 0.23839 0.2331 RANDOM 57.635
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] 0.74 0.74 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.834 r_dihedral_angle_4_deg 22.847 r_dihedral_angle_3_deg 15.668 r_dihedral_angle_1_deg 6.312 r_angle_other_deg 4.212 r_scangle_it 3.095 r_scbond_it 1.704 r_angle_refined_deg 1.386 r_mcangle_it 0.904 r_mcbond_it 0.451
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.834 r_dihedral_angle_4_deg 22.847 r_dihedral_angle_3_deg 15.668 r_dihedral_angle_1_deg 6.312 r_angle_other_deg 4.212 r_scangle_it 3.095 r_scbond_it 1.704 r_angle_refined_deg 1.386 r_mcangle_it 0.904 r_mcbond_it 0.451 r_chiral_restr 0.077 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3146 Nucleic Acid Atoms Solvent Atoms 14 Heterogen Atoms 42
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling