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Structure of a Streptococcus pneumoniae fucose binding module in complex with the blood group H-trisaccharide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 20-22% polyethylene glycol 1500, 0.15M KSCN, and 0.1M Tris-HCl, pH 7.5
Crystal Properties Matthews coefficient Solvent content 1.64 24.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.827 α = 90 b = 60.465 β = 90 c = 99.498 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 113 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 1.45 20 99.6 0.065 13.8 6.4 45077 2
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 1.45 1.5 99.5 0.384 4.2 6.4
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 1.45 51.99 45077 2397 99.6 0.154 0.152 0.166 0.208 0.165 RANDOM 12.62
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] -0.32 0.56 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.401 r_scangle_it 4.532 r_scbond_it 3.079 r_mcangle_it 2.162 r_angle_refined_deg 1.629 r_mcbond_it 1.438 r_angle_other_deg 0.965 r_symmetry_vdw_refined 0.289 r_symmetry_vdw_other 0.289 r_nbd_other 0.263
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.401 r_scangle_it 4.532 r_scbond_it 3.079 r_mcangle_it 2.162 r_angle_refined_deg 1.629 r_mcbond_it 1.438 r_angle_other_deg 0.965 r_symmetry_vdw_refined 0.289 r_symmetry_vdw_other 0.289 r_nbd_other 0.263 r_nbd_refined 0.241 r_xyhbond_nbd_refined 0.216 r_symmetry_hbond_refined 0.202 r_chiral_restr 0.111 r_nbtor_other 0.084 r_gen_planes_other 0.021 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2198 Nucleic Acid Atoms Solvent Atoms 624 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement MOLREP phasing