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Crystal structure of the enzymatic component C2-I of the C2-toxin from Clostridium botulinum at pH 3.0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 3 PROTEIN: 10 MG/ML IN H2O RESERVOIR: 0.8 M (NH4)2SO4, 0.1 M CITRATE PH 3.0, HANGING DROP:1:1
Crystal Properties Matthews coefficient Solvent content 3.15 61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.811 α = 90 b = 114.811 β = 90 c = 162.681 γ = 120
Symmetry Space Group P 63 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 2.12 85 99.1 0.05 30.9 10.4 36331 -3
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 2.12 2.21 97.5 0.2 8.9
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 2.11 19.32 33796 2544 100 0.191 0.188 0.1994 0.238 0.2479 RANDOM 25.62
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] 2.29 1.15 2.29 -3.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.648 r_dihedral_angle_4_deg 23.933 r_dihedral_angle_3_deg 16.736 r_dihedral_angle_1_deg 6.6 r_scangle_it 4.296 r_angle_other_deg 3.707 r_scbond_it 2.689 r_angle_refined_deg 1.901 r_mcangle_it 1.663 r_mcbond_it 0.896
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.648 r_dihedral_angle_4_deg 23.933 r_dihedral_angle_3_deg 16.736 r_dihedral_angle_1_deg 6.6 r_scangle_it 4.296 r_angle_other_deg 3.707 r_scbond_it 2.689 r_angle_refined_deg 1.901 r_mcangle_it 1.663 r_mcbond_it 0.896 r_symmetry_vdw_other 0.264 r_symmetry_hbond_refined 0.244 r_nbd_other 0.243 r_nbd_refined 0.221 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.181 r_symmetry_vdw_refined 0.174 r_nbtor_other 0.113 r_chiral_restr 0.111 r_bond_refined_d 0.02 r_gen_planes_other 0.009 r_gen_planes_refined 0.007 r_bond_other_d r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3474 Nucleic Acid Atoms Solvent Atoms 325 Heterogen Atoms 160
Software Software Software Name Purpose REFMAC refinement SHARP phasing