Navigation Tabs Trypanosoma brucei IMP dehydrogenase (cyto) crystallized in High Five cells revealing native ligands ATP, GDP and phosphate. Diffraction data collection at 100 K in cellulo
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JCN used only A chain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 IN CELL 300 in cellulo rBV IMPDH cyto (MOI 1) infected High Five cells, adhesion culture.
Crystal Properties Matthews coefficient Solvent content 4.5 72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 205.75 α = 90 b = 205.75 β = 90 c = 92.1 γ = 90
Symmetry Space Group P 4 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 100 PIXEL DECTRIS EIGER2 S 16M 2019-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.976 PETRA III, EMBL c/o DESY P14 (MX2)
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 micro-mesh fixed target
Fixed Target Diffraction ID Description Sample Holding Support Base Motion control Details Sample Solvent 1 mesh goniometer MD3-diffractometer semi-automated cryo-cooling procedure ESF921 cell culture medium
Data Reduction Diffraction ID Frames Indexed Crystal Hits Frames Indexed Latices Merged 1 75741 75741
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 2.399 77.82 99.88 0.9973 0.0862 10.06 1797 77541
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 2.399 2.456 99.32 0.2331 0.089 1.809 1018
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1JCN 2.4 72.74 1.33 77524 1120 99.92 0.2254 0.2252 0.23 0.2404 0.24 1
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 7.979 f_angle_d 0.624 f_chiral_restr 0.041 f_plane_restr 0.004 f_bond_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6737 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 128
Software Software Software Name Purpose PHENIX refinement MxCuBE data collection CrystFEL data reduction CrystFEL data scaling Coot model building PDB_EXTRACT data extraction PHENIX phasing
