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Structure of a thiolation-reductase di-domain from an archaeal non-ribosomal peptide synthetase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4F6C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293.15 Crystals were grown by vapour diffusion, hanging drop method. Drop volume was 2 micro-litre (1+1) equilibrated against 500 micro-litre of reservoir volume containing 0.1 M MOPS/Na-HEPES buffer at pH 7.5, 15% PEG MME and 14% PEG 20K as precipitants in the presence of 0.02M each of L-Na Glutamate, DL-Alanine, Glycine, DL-Lysine HCl, DL-Serine as additives. The concentration of protein was 30 mg/ml in HEPES buffer at pH 7.5 containing 150 mM NaCl
Crystal Properties Matthews coefficient Solvent content 3.59 65.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 139.92 α = 90 b = 139.92 β = 90 c = 71.75 γ = 120
Symmetry Space Group P 32 2 1
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 EIGER X 16M 2017-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.953 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.65 46.291 99.9 0.221 0.996 7.07 10.72 23800 75.77
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 2.65 2.83 0.338
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 4F6C 2.65 46.291 1.34 23790 1137 99.98 0.2051 0.2032 0.2128 0.2456 0.2518 73.5979
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 2965 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling PDB_EXTRACT data extraction PHASER phasing