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XFEL structure of T4dCH D179N mutant complex with natively expressed dTMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1B5E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 8.5 293 2 ul of 1.0 M Tris-HCl pH 8.5
2 ul of 1.0 M NaI
17 ul of C6H5Na3 2H2O
10 ul of 40mg/ml D179N mutant protein
Crystal Properties Matthews coefficient Solvent content 2.76 55.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.86 α = 90 b = 74.97 β = 90 c = 157.62 γ = 90
Symmetry Space Group I 2 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 295 CCD RAYONIX MX225-HS 2018-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 FREE ELECTRON LASER PAL-XFEL BEAMLINE NCI 1.2782 PAL-XFEL NCI
Serial Crystallography Measurement Diffraction ID Pulse Duration Pulse Repetition Rate Focal Spot Size Pulse Energy Photons Per Pulse 1 30 (fs) undefined (KeV)
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1
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 1.88 40 100 0.1914 4.87 595.9 27244
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.88 1.95 100 0.3795 2.51 176.2
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1B5E 1.9 37.4923 26554 1360 100 0.1691 0.1776 0.1905 0.1976 58.2769
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2009 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 23
Software Software Software Name Purpose PHASER phasing XDS data reduction PHENIX refinement PDB_EXTRACT data extraction CrystFEL data scaling