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SSX structure of Lysozyme grown in microfluidic droplets
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6H79
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROFLUIDIC 3 294 20 mg/mL Lysozyme dissolved in 20 mM sodium acetate pH 4.6
Precipitant: 6% PEG 6000 (W/V), 3.4M NaCl and 1M sodium acetate pH 3.0
Crystal Properties Matthews coefficient Solvent content 2.06 40.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.9 α = 90 b = 78.9 β = 90 c = 37.9 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 293 PIXEL PSI JUNGFRAU 4M 2023-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.07 ESRF ID29
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 SOS Chip fixed target
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1 22304 22815 22304
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.8 78.9 100 0.99 17.2 464 11607 24.06
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.83 100 0.44 0.9 51.94
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.8 55.853 11567 581 99.991 0.148 0.1456 0.1589 0.1897 0.2003 32.594
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_3_deg 14.028 r_dihedral_angle_6_deg 13.988 r_lrange_it 7.614 r_lrange_other 7.613 r_scangle_it 6.812 r_scangle_other 6.807 r_dihedral_angle_1_deg 6.733 r_dihedral_angle_2_deg 5.959 r_scbond_it 4.351 r_scbond_other 4.348
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.028 r_dihedral_angle_6_deg 13.988 r_lrange_it 7.614 r_lrange_other 7.613 r_scangle_it 6.812 r_scangle_other 6.807 r_dihedral_angle_1_deg 6.733 r_dihedral_angle_2_deg 5.959 r_scbond_it 4.351 r_scbond_other 4.348 r_mcangle_other 3.185 r_mcangle_it 3.149 r_mcbond_it 2.497 r_mcbond_other 2.427 r_angle_refined_deg 1.767 r_angle_other_deg 0.601 r_nbd_refined 0.239 r_symmetry_nbd_other 0.212 r_nbtor_refined 0.205 r_xyhbond_nbd_refined 0.181 r_nbd_other 0.153 r_symmetry_xyhbond_nbd_refined 0.138 r_chiral_restr 0.083 r_symmetry_nbtor_other 0.083 r_symmetry_nbd_refined 0.043 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 66 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement CrystFEL data reduction CrystFEL data scaling MOLREP phasing