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Crystal structure of the Chitinase Domain of the Spore Coat Protein CotE from Clostridium difficile
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 291 Well solution: 200 mM ammonium phosphate, 22.5% PEG 3350
Protein solution: 20 mM Tris-HCl, pH 8.0, 150 mM NaCl
Drop: 3 microlitre (1 microlitre protein plus 2 microlitre reservoir solution)
Crystal Properties Matthews coefficient Solvent content 2.29 46.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.894 α = 90 b = 54.899 β = 101.038 c = 80.311 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 2M 2016-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.3 47.21 97.9 0.058 0.997 18 4.6 94650
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.3 1.32 96.1 0.31 0.954 6.5 4.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE xxx 1.3 45.09 94350 4557 97.89 0.107 0.1055 0.1055 0.1333 0.1333 14.194
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] -0.013 0.011 -0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.349 r_dihedral_angle_4_deg 18.349 r_rigid_bond_restr 10.423 r_dihedral_angle_3_deg 10.205 r_dihedral_angle_1_deg 6.518 r_lrange_it 3.294 r_lrange_other 3.294 r_scangle_it 3.164 r_scangle_other 3.163 r_scbond_other 2.966
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.349 r_dihedral_angle_4_deg 18.349 r_rigid_bond_restr 10.423 r_dihedral_angle_3_deg 10.205 r_dihedral_angle_1_deg 6.518 r_lrange_it 3.294 r_lrange_other 3.294 r_scangle_it 3.164 r_scangle_other 3.163 r_scbond_other 2.966 r_scbond_it 2.962 r_angle_refined_deg 2.471 r_angle_other_deg 2.467 r_mcangle_other 1.755 r_mcangle_it 1.74 r_mcbond_it 1.422 r_mcbond_other 1.381 r_symmetry_xyhbond_nbd_other 0.509 r_symmetry_nbd_refined 0.485 r_symmetry_xyhbond_nbd_refined 0.339 r_nbd_other 0.244 r_xyhbond_nbd_refined 0.242 r_nbd_refined 0.234 r_symmetry_nbd_other 0.218 r_nbtor_refined 0.187 r_chiral_restr 0.145 r_symmetry_nbtor_other 0.091 r_bond_other_d 0.035 r_gen_planes_other 0.024 r_bond_refined_d 0.02 r_gen_planes_refined 0.014
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2777 Nucleic Acid Atoms Solvent Atoms 490 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing