Table 1.
Amino acid propensities for turn motifs calculated by using TorusDBN
| Name | Position | Input |
Output |
|||
|---|---|---|---|---|---|---|
| (φ, ψ) | SS | AA | ||||
| β-Turn type I | 1 | (−60, −30) | C | P (3.2130) | S (1.5816) | E (1.3680) |
| 2 | (−90, 0) | C | D (2.4864) | N (2.1854) | S (1.5417) | |
| β-Turn type II | 1 | (−60, 120) | C | P (3.9598) | K (1.4291) | E (1.4234) |
| 2 | (80, 0) | C | G (10.6031) | N (1.0152) | ||
| β-Turn type VIII | 1 | (−60, −30) | C | P (3.4599) | S (1.3431) | D (1.3290) |
| 2 | (−120, 120) | C | V (1.9028) | I (1.8459) | F (1.3373) | |
| β-Hairpin type I' | 1 | (60, 30) | C | N (5.9596) | D (2.3904) | H (1.6610) |
| 2 | (90, 0) | C | G (12.4208) | |||
| β-Hairpin type II' | 1 | (60, −120) | C | G (11.2226) | ||
| 2 | (−80, 0) | C | N (2.9914) | D (2.8430) | H (1.5844) | |
The propensity of a particular amino acid (columns 5–7) at a certain position (column 2) in a motif (column 1) is calculated as the posterior probability P(a∣d, s) divided by the probability of that amino acid according to the stationary distribution P(a) of the model. Angular and secondary structure input are listed in columns 3 and 4. The three most preferred amino acids (with propensities >1) are reported.