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The crystal structure of the cysteine protease and lectin-like domains of Cwp84, a surface layer associated protein of Clostridium difficile
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 0.2 M AMMONIUM SULPHATE, 30% (V/V) PEG 4000, PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.19 43.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.91 α = 90 b = 73.49 β = 93.57 c = 125.63 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 2012-08-09 M SINGLE WAVELENGTH 2 1 x-ray PIXEL DECTRIS PILATUS 6M M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795, 0.9793, 0.9795 Diamond I02 2 SYNCHROTRON DIAMOND BEAMLINE I03 0.9717, 0.9879 Diamond I03
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 48.15 93.9 0.099 16 4.8 170213
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 1.4 1.42 65.3 0.258 4.2 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT NONE 1.4 125.39 156435 8310 90.72 0.1397 0.13814 0.16909 0.1931 RANDOM 17.361
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] 2.15 -0.28 -1.04 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.293 r_sphericity_free 31.904 r_dihedral_angle_4_deg 20.132 r_dihedral_angle_3_deg 12.904 r_dihedral_angle_1_deg 11.447 r_sphericity_bonded 11.413 r_long_range_B_refined 4.099 r_long_range_B_other 3.716 r_scangle_other 3.198 r_scbond_it 2.731
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.293 r_sphericity_free 31.904 r_dihedral_angle_4_deg 20.132 r_dihedral_angle_3_deg 12.904 r_dihedral_angle_1_deg 11.447 r_sphericity_bonded 11.413 r_long_range_B_refined 4.099 r_long_range_B_other 3.716 r_scangle_other 3.198 r_scbond_it 2.731 r_scbond_other 2.731 r_rigid_bond_restr 2.543 r_mcangle_it 2.006 r_mcangle_other 2.006 r_mcbond_it 1.629 r_mcbond_other 1.608 r_angle_refined_deg 1.34 r_angle_other_deg 0.853 r_chiral_restr 0.094 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7127 Nucleic Acid Atoms Solvent Atoms 927 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling CRANK phasing