SOLUTION NMR

NMR Experiment
Experiment Type Sample Contents Ionic Strength Solvent pH Pressure Temprature (K)
1 3D simultaneous 13C/15N edited NOESY 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
2 3D CBCA(CO)NH 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
3 3D HNCA 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
4 3D HNCACB 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
5 3D H(CCO)-TOCSY-NNH 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
6 3D (H)C(CO)-TOCSY-NNH 0.6mM 13C,15N labeled FAT with 4.8mM LD2 peptide, 25mM TRIS-MALEATE, 0.1% NAN3, 1.0uM PPACK, 0.5mg/mL PEFABLOC, 90% H2O, 10% D2O 50 mM NaCl 20mM deuterated Tris-maleate, 50mM NaCl, 0.1mM EDTA, 0.1% NaN3, and 10% D2O, pH 6.0 6.0 1 310
NMR Spectrometer Information
Spectrometer Manufacturer Model Field Strength
NMR Refinement
Method Details Software
The program CNS version 1.1 with ARIA version 1.2 module was used to calculate the structures of the avian FAT domain. The structural restraints included NOE, hydrogen bond, dihedral angle, and RDC restraints. The NOE distance restraints were derived from a 3D simultaneous 13C/15N edited NOESY peak lists with 75 ms mixing time. The peak lists were generated automatically by NMRView and edited manually to remove any obvious water and apodization artifacts. The peak lists were unassigned and uncalibrated with respect to distance. To calibrate the NOE distances, the rotational correlation time of the complex was set to 10 ns and was based on values obtained on proteins of this size at similar temperature. The default parameters for ARIA produced structures with poor convergence. Several parameters were optimized, including the ambiguous cutoff (rho), the violation tolerance (vtol), and maximum number of ambiguities per peak (maxn), to provide better noise discrimination. The following scheme led to the best convergence over 9 iterations: rho = (0.95, 0.95, 0.95, 0.94, 0.93, 0.92, 0.91, 0.90, 0 80), vtol = (5.0, 2.0, 1.0, 0.5, 0.25, 1.0, 0.1, 0.1, 0.1), maxn = 5 for all iterations. An ensemble of 25 calculated NMR structures of the avian FAT domain was selected for further analysis. 1
NMR Ensemble Information
Conformer Selection Criteria structures with the lowest energy
Conformers Calculated Total Number 100
Conformers Submitted Total Number 25
Representative Model 1 (closest to the average)
Computation: NMR Software
# Classification Version Software Name Author
1 refinement 1.1 CNS Brunger, A.T. et al.
2 processing 2.1 NMRPipe Delaglio, F. et al.
3 collection 6.1 VNMR Varian
4 refinement 1.2 ARIA Linge, J.P. et al.
5 data analysis 5.0.4 NMRView Johnson, B.A. et al.