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Crystal structure of the B-subunit of the AB5 toxin from E. coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 293 16%(w/v) PEG 3350, 100mM sodium cacodylate, 200mM ammonium fluoride, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.22 61.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.63 α = 90 b = 97.63 β = 90 c = 165.36 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B APS 14-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.084 84.22 45985
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.084
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 SAD THROUGHOUT 2.084 48.8 43610 2361 86.98 0.19182 0.1894 0.2566 0.23626 0.2538 RANDOM 28.1
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] -0.98 -0.49 -0.98 1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.235 r_dihedral_angle_3_deg 16.597 r_dihedral_angle_4_deg 15.297 r_dihedral_angle_1_deg 8.387 r_scangle_it 4.293 r_scbond_it 3.011 r_mcangle_it 2.045 r_angle_refined_deg 1.702 r_mcbond_it 1.393 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.235 r_dihedral_angle_3_deg 16.597 r_dihedral_angle_4_deg 15.297 r_dihedral_angle_1_deg 8.387 r_scangle_it 4.293 r_scbond_it 3.011 r_mcangle_it 2.045 r_angle_refined_deg 1.702 r_mcbond_it 1.393 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.273 r_nbd_refined 0.216 r_xyhbond_nbd_refined 0.167 r_chiral_restr 0.128 r_symmetry_hbond_refined 0.128 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 4546 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement