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Structure of the C7S mutant of mosquitocidal Cyt1A protoxin obtained by Serial Femtosecond Crystallography on in vivo grown crystals at pH 7
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6T14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 IN CELL 7 300 In cell crystallization by recombinant expression in a Bacillus thuringiensis serovar israelensis strain devoid of its pBt plasmid.
Crystal Properties Matthews coefficient Solvent content 1.91 35.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.666 α = 90 b = 65.666 β = 90 c = 164.066 γ = 120
Symmetry Space Group P 61 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 300 PIXEL CS-PAD CXI-2 2016-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 FREE ELECTRON LASER SLAC LCLS BEAMLINE CXI 1.28 SLAC LCLS CXI
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 injection
Measurement Diffraction ID Pulse Duration Pulse Repetition Rate Focal Spot Size Pulse Energy Photons Per Pulse 1 40 (fs) 120 1.7 undefined (KeV)
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1 7683 7683
Injection Diffraction ID Description Flow Rate Injector Diameter Injection Power Injector Nozzle Filter Size Carrier Solvent 1 MESH undefined (µl/min) undefined (µm)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) R Split (All) 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 1.97 50 99.9 0.994 0.125 19.8 65.8 14420
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.97 2.01 0.178 0.616 2.8
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 6t14 2 14.838 14420 722 96.681 0.214 0.2116 0.2118 0.2691 0.2692 35.915
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] -0.001 -0.001 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.969 r_dihedral_angle_3_deg 14.796 r_lrange_it 7.035 r_dihedral_angle_1_deg 6.117 r_dihedral_angle_4_deg 5.481 r_scangle_it 2.782 r_mcangle_it 2.334 r_scbond_it 1.75 r_mcbond_it 1.451 r_angle_refined_deg 0.815
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.969 r_dihedral_angle_3_deg 14.796 r_lrange_it 7.035 r_dihedral_angle_1_deg 6.117 r_dihedral_angle_4_deg 5.481 r_scangle_it 2.782 r_mcangle_it 2.334 r_scbond_it 1.75 r_mcbond_it 1.451 r_angle_refined_deg 0.815 r_nbtor_refined 0.297 r_nbd_refined 0.207 r_symmetry_nbd_refined 0.192 r_xyhbond_nbd_refined 0.156 r_symmetry_xyhbond_nbd_refined 0.135 r_chiral_restr 0.04 r_bond_refined_d 0.004 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1882 Nucleic Acid Atoms Solvent Atoms 276 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling PHASER phasing