Table 1 Hydrogen bonds atomic interaction frequency matrix
From: Prediction of TF target sites based on atomistic models of protein-DNA complexes
T | C | A | G | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
O2 | N3 | O4 | O2 | N3 | N4 | N7 | N6 | N3 | N7 | O6 | N2 | N3 | ||
R | NE | 6 | 0 | 3 | 4 | 0 | 0 | 0 | 0 | 0 | 13 | 11 | 0 | 1 |
R | NH1 | 21 | 0 | 2 | 9 | 4 | 0 | 2 | 0 | 8 | 48 | 39 | 0 | 4 |
R | NH2 | 15 | 0 | 8 | 14 | 3 | 0 | 0 | 0 | 7 | 62 | 80 | 0 | 3 |
K | NZ | 15 | 0 | 9 | 9 | 1 | 0 | 6 | 0 | 7 | 33 | 38 | 0 | 2 |
S | OG | 4 | 0 | 2 | 2 | 0 | 5 | 4 | 1 | 2 | 7 | 9 | 3 | 1 |
T | OG1 | 2 | 1 | 4 | 2 | 0 | 9 | 2 | 1 | 1 | 3 | 3 | 2 | 0 |
N | OD1 | 0 | 1 | 0 | 0 | 0 | 8 | 0 | 23 | 0 | 0 | 0 | 6 | 0 |
N | ND2 | 6 | 0 | 11 | 3 | 0 | 0 | 20 | 0 | 2 | 4 | 11 | 0 | 7 |
Q | OE1 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | 17 | 0 | 0 | 0 | 4 | 0 |
Q | NE2 | 2 | 0 | 7 | 3 | 1 | 0 | 16 | 0 | 3 | 1 | 6 | 0 | 5 |
H | ND1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 5 | 0 | 0 |
H | NE2 | 3 | 0 | 2 | 1 | 0 | 1 | 0 | 0 | 1 | 5 | 12 | 1 | 1 |
Y | OH | 1 | 0 | 4 | 3 | 0 | 1 | 1 | 3 | 1 | 2 | 2 | 3 | 1 |
E | OE1 | 0 | 1 | 0 | 0 | 0 | 16 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
E | OE2 | 0 | 2 | 0 | 0 | 0 | 11 | 0 | 2 | 0 | 0 | 0 | 1 | 0 |
D | OD1 | 0 | 0 | 0 | 0 | 0 | 10 | 0 | 1 | 0 | 0 | 0 | 2 | 0 |
D | OD2 | 0 | 3 | 0 | 0 | 0 | 13 | 0 | 1 | 0 | 0 | 0 | 5 | 0 |
C | SG | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 |
M | SD | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
W | NE1 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |