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Structure of H. influenzae sialic acid binding protein bound to Neu5Ac.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 290 37 mg/mL SiaP in 20 mM HEPES, 10 mM NaCl, 10 mM Neu5Ac, pH 8.0 and reservoir solution (100 mM MES, 30% w/v PEG 6000, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.22 44.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.527 α = 90 b = 74.598 β = 90 c = 86.534 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 100 CCD MAR CCD 165 mm 2006-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 0.9793 APS 17-ID
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 1.4 36.37 99.6 0.079 10.1 7.03 61154
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) 1.4 1.45 96.8 0.494 2.5 5.34 5879
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 1.4 36.37 61075 3094 99.57 0.163 0.161 0.1695 0.201 0.1996 RANDOM 15.062
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] 0.12 -0.35 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.023 r_dihedral_angle_3_deg 13.438 r_dihedral_angle_4_deg 9.879 r_dihedral_angle_1_deg 5.69 r_scangle_it 3.802 r_scbond_it 2.91 r_mcangle_it 1.683 r_angle_refined_deg 1.463 r_mcbond_it 1.414 r_angle_other_deg 0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.023 r_dihedral_angle_3_deg 13.438 r_dihedral_angle_4_deg 9.879 r_dihedral_angle_1_deg 5.69 r_scangle_it 3.802 r_scbond_it 2.91 r_mcangle_it 1.683 r_angle_refined_deg 1.463 r_mcbond_it 1.414 r_angle_other_deg 0.92 r_mcbond_other 0.642 r_chiral_restr 0.238 r_nbd_refined 0.236 r_symmetry_vdw_other 0.207 r_nbtor_refined 0.189 r_nbd_other 0.177 r_symmetry_vdw_refined 0.168 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.15 r_nbtor_other 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2471 Nucleic Acid Atoms Solvent Atoms 475 Heterogen Atoms 21
Software Software Software Name Purpose d*TREK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction d*TREK data reduction