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Serial Macromolecular Crystallography at ALBA Synchrotron Light Source - Proteinase K
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IC6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 298 0.1 M MES pH 6.5, 0.5 sodium citrate, 0.1 M calcium chloride
Crystal Properties Matthews coefficient Solvent content 2.19 43.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.4 α = 90 b = 68.4 β = 90 c = 108.4 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 PIXEL DECTRIS PILATUS 6M 2018-09-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97918 ALBA XALOC
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 LCP Injection injection
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1
Injection Diffraction ID Description Flow Rate Injector Diameter Injection Power Injector Nozzle Filter Size Carrier Solvent 1 undefined (µl/min) undefined (µm)
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 1.9 48.4 100 0.9985 17.4 3757 21010 23.7
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 1.9 1.97 100 0.2255 0.6 315
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 1IC6 1.9 44.21 19879 1071 99.99 0.16664 0.16508 0.1767 0.19559 0.202 RANDOM 30.94
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] 0.09 0.09 -0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.812 r_dihedral_angle_4_deg 19.804 r_dihedral_angle_3_deg 12.819 r_dihedral_angle_1_deg 6.283 r_long_range_B_refined 3.957 r_long_range_B_other 3.954 r_scangle_other 2.672 r_scbond_it 1.637 r_scbond_other 1.635 r_angle_refined_deg 1.513
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.812 r_dihedral_angle_4_deg 19.804 r_dihedral_angle_3_deg 12.819 r_dihedral_angle_1_deg 6.283 r_long_range_B_refined 3.957 r_long_range_B_other 3.954 r_scangle_other 2.672 r_scbond_it 1.637 r_scbond_other 1.635 r_angle_refined_deg 1.513 r_mcangle_it 1.34 r_mcangle_other 1.339 r_angle_other_deg 1.196 r_mcbond_it 0.908 r_mcbond_other 0.907 r_chiral_restr 0.088 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2031 Nucleic Acid Atoms Solvent Atoms 89 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement CrystFEL data reduction Aimless data scaling MOLREP phasing