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Surface glycan-binding protein A from Bacteroides thetaiotaomicron
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 295 0.1 M bis-tris pH6.5, 0.2M lithium sulfate,
25 % (w/v) PEG3350
Crystal Properties Matthews coefficient Solvent content 2.4 48.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.83 α = 90 b = 71.685 β = 105.099 c = 75.068 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 100 PIXEL DECTRIS PILATUS3 6M 2020-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.8 38.26 99.1 0.993 10 6.3 51588
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.83 0.462
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.8 38.26 51588 2482 98.89 0.165 0.1638 0.1638 0.194 0.1941 25.718
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] 0.403 -0.434 -0.073 -0.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.442 r_dihedral_angle_4_deg 19.151 r_dihedral_angle_3_deg 12.497 r_dihedral_angle_1_deg 6.604 r_lrange_it 5.162 r_lrange_other 5.002 r_scangle_it 3.966 r_scangle_other 3.966 r_mcangle_it 3.107 r_mcangle_other 3.107
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.442 r_dihedral_angle_4_deg 19.151 r_dihedral_angle_3_deg 12.497 r_dihedral_angle_1_deg 6.604 r_lrange_it 5.162 r_lrange_other 5.002 r_scangle_it 3.966 r_scangle_other 3.966 r_mcangle_it 3.107 r_mcangle_other 3.107 r_scbond_it 2.691 r_scbond_other 2.691 r_angle_other_deg 2.364 r_mcbond_it 2.31 r_mcbond_other 2.31 r_angle_refined_deg 1.599 r_symmetry_nbd_refined 0.23 r_symmetry_xyhbond_nbd_refined 0.209 r_nbd_refined 0.207 r_symmetry_nbd_other 0.207 r_nbd_other 0.205 r_xyhbond_nbd_refined 0.181 r_nbtor_refined 0.176 r_metal_ion_refined 0.12 r_chiral_restr 0.086 r_symmetry_nbtor_other 0.068 r_bond_other_d 0.036 r_gen_planes_other 0.016 r_gen_planes_refined 0.011 r_bond_refined_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3831 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing