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Crystal structure of an engineered botulinum neurotoxin type A- SNARE23 derivative, LC0-A-SNAP25-Hn-A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2W2D PDB ENTRY 2W2D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M TRIS PH 7.5, 0.2 M LISO4, 15% PEG 3350.
Crystal Properties Matthews coefficient Solvent content 3 59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.957 α = 90 b = 157.495 β = 90 c = 209.357 γ = 90
Symmetry Space Group P 21 21 21
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 ADSC CCD 2011-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 2.7 29.6 96.6 0.1 14.5 7.3 69459
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 2.7 2.9 79.7 0.5 2.9 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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2W2D 2.71 125.86 65805 3500 96.51 0.21484 0.21213 0.2074 0.2664 0.257 RANDOM 49.874
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] -1.16 1.71 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.814 r_dihedral_angle_4_deg 16.555 r_dihedral_angle_3_deg 16.539 r_dihedral_angle_1_deg 5.698 r_scangle_it 1.913 r_angle_refined_deg 1.094 r_scbond_it 1.074 r_mcangle_it 0.934 r_mcbond_it 0.49 r_chiral_restr 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.814 r_dihedral_angle_4_deg 16.555 r_dihedral_angle_3_deg 16.539 r_dihedral_angle_1_deg 5.698 r_scangle_it 1.913 r_angle_refined_deg 1.094 r_scbond_it 1.074 r_mcangle_it 0.934 r_mcbond_it 0.49 r_chiral_restr 0.078 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_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 13649 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing