Table 2. Statistics of distance and dihedral angle restraints used for 3D structure calculations and quality ensemble of 200 NMR-derived structures of the peptides on the last steps of MD simulations with the time-averaged distance and dihedral angle restraints.
Peptide | ||||||
---|---|---|---|---|---|---|
Tat1_4-5TO | Tat1_8-9TO | Tat1_8-9TOD | Tat1_4-5TO,8-9TOD | Tat1_A4-5,8–9 | ||
Interproton distances: | total number | 57 | 36 | 48 | 48 | 71 |
intra-residue | 46 | 27 | 39 | 37 | 59 | |
i, i+1 | 11 | 9 | 9 | 11 | 11 | |
i, i+2 | 0 | 0 | 0 | 0 | 1 | |
Dihedral angle restraints a | 18 | 22 | 23 | 17 | 25 | |
Structure b | 8,9 β I or IV (38%) | - | - | 6 γ(63%) | 5,6 β I or IV (81%) | |
Hydrogen bonds c | s.c.6-CO5 | - | Hε10-CO8 | HN7-CO5 | s.c10-CO12 | |
RMSD 1-9bb [Å] | 1.008 | 1.357 | 1.187 | 0.865 | 1.140 | |
Rg heavy [Å] | 8.4 | 9.7 | 7.7 | 8.3 | 9.5 |
aThe distance constraints and the 3JHNHα vicinal coupling constants were used in the HABAS algorithm of the DYANA package to generate φ, ψ and χ1 dihedral angle restraints.
b The content of the conformers with indicated turn structure is given in parentheses.
c Hydrogen bonds appearing in more than 50% of the structures in the final ensemble.