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Crystal structure of the heterotrimeric PriSLX primase from S. solfataricus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZT2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 11% PEG 8000, 21.5% ethylene glycol, 0.1 M bicine/Trizma base pH 8.5, 0.03 M di-, tri-, tetra- and penta-ethyleneglycol (Morpheus crystallization screen, Molecular Dimensions).
Crystal Properties Matthews coefficient Solvent content 3.84 67.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.889 α = 90 b = 104.889 β = 90 c = 229.758 γ = 90
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 PILATUS3 6M 2015-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rpim I (All) 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 2.906 46.91 99.96 0.105 0.1112 0.03641 0.998 15.09 9.3 54380 89.45
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.906 3.01 99.93 1.404 1.489 0.4952 0.527 1.47 9
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 1ZT2 2.906 46.91 0.05 54374 5281 99.94 0.2305 0.2283 0.2289 0.2713 0.2681
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 13.51 f_angle_d 0.534 f_chiral_restr 0.042 f_bond_d 0.006 f_plane_restr 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11398 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 130
Software Software Software Name Purpose PHENIX refinement XDS data reduction XDS data scaling PHASER phasing