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Room temperature structure of lysozyme delivered in polyacrylamide by serial millisecond crystallography
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6IRJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 293.5 sodium acetate, PEG 8000, NaCl
Crystal Properties Matthews coefficient Solvent content 1.8 31.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.535 α = 90 b = 78.535 β = 90 c = 38.02 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298.15 PIXEL DECTRIS PILATUS3 S 6M 2019-02-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 11C 0.97942 PAL/PLS 11C
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 injection
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1 21594 24204 21594
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 1.76 79.3 100 0.994 0.074 7.5 770.4 17368 35.52
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 1.76 1.82 100 0.38 0.6908 1.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6IRJ 1.76 55.53 1.36 12284 729 99.97 0.1759 0.1742 0.1766 0.2019 0.2042 45.62
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.6745 f_angle_d 1.0331 f_chiral_restr 0.0536 f_bond_d 0.0099 f_plane_restr 0.0064
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 54 Heterogen Atoms 2
Software Software Software Name Purpose PHENIX refinement PHENIX refinement PDB_EXTRACT data extraction CrystFEL data reduction CrystFEL data scaling PHENIX phasing