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Se-SAD structure of the functional region of Cwp19 from Clostridium difficile
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 90% (50 mM monobasic potassium phosphate, 14% PEG 8000)
10% (20 mM xylitol, 20 mM myo-inositol, 20 mM D-fructose, 20 mM L-rhammnose monohydrate, 20 mM D-sorbitol, 100 mM BES/TEA pH 7.5, 40% pentane-1,5,-diol)
Crystal Properties Matthews coefficient Solvent content 1.98 38.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.28 α = 90 b = 60.41 β = 94.21 c = 105.05 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 PILATUS 6M-F 2016-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9794 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.3 55.13 100 0.255 0.26 0.05 0.999 28.2 52.7 30986
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 100 0.591 0.603 0.116 0.98 9.9 53.6
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 2.3 55.13 29462 1511 99.98 0.19583 0.19279 0.2021 0.25411 0.2563 RANDOM 28.582
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] 0.99 0.79 -0.05 -1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.397 r_dihedral_angle_3_deg 14.643 r_dihedral_angle_4_deg 13.067 r_dihedral_angle_1_deg 6.207 r_long_range_B_refined 3.706 r_long_range_B_other 3.706 r_mcangle_it 2.346 r_mcangle_other 2.346 r_scangle_other 2.121 r_mcbond_it 1.409
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.397 r_dihedral_angle_3_deg 14.643 r_dihedral_angle_4_deg 13.067 r_dihedral_angle_1_deg 6.207 r_long_range_B_refined 3.706 r_long_range_B_other 3.706 r_mcangle_it 2.346 r_mcangle_other 2.346 r_scangle_other 2.121 r_mcbond_it 1.409 r_mcbond_other 1.401 r_angle_refined_deg 1.311 r_scbond_it 1.247 r_scbond_other 1.247 r_angle_other_deg 0.91 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5788 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling CRANK2 phasing