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Time Resolved Serial Femtosecond Crystallography Captures High Resolution Intermediates of PYP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PHY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7 296 Microcrystals (~ 2 x 2 x 5 um^3) were formed by centrifugation in a spin filter.
Crystal Properties Matthews coefficient Solvent content 1.9 35.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.9 α = 90 b = 66.9 β = 90 c = 40.8 γ = 120
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 CS-PAD detector 2014-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 FREE ELECTRON LASER SLAC LCLS BEAMLINE CXI 1.3784 SLAC LCLS CXI
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.6 16.73 100 0.065 12.4 1500 13500
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 MOLECULAR REPLACEMENT THROUGHOUT 2PHY 1.6 16.73 13500 654 97.62 0.1993 0.1978 0.2307 0.2423 RANDOM 18.943
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] -0.24 -0.12 -0.24 0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.048 r_dihedral_angle_3_deg 15.668 r_dihedral_angle_4_deg 14.714 r_dihedral_angle_1_deg 6.133 r_scbond_it 3.297 r_mcangle_it 2.818 r_angle_refined_deg 2.097 r_mcbond_it 1.903 r_chiral_restr 0.161 r_bond_refined_d 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.048 r_dihedral_angle_3_deg 15.668 r_dihedral_angle_4_deg 14.714 r_dihedral_angle_1_deg 6.133 r_scbond_it 3.297 r_mcangle_it 2.818 r_angle_refined_deg 2.097 r_mcbond_it 1.903 r_chiral_restr 0.161 r_bond_refined_d 0.02 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 976 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction