Table 2.
Acceptor/Donor Atoma | Trailing Strand | Middle Strand | Leading Strand | |||
---|---|---|---|---|---|---|
Frames | Occupancy | Frames | Occupancy | Frames | Occupancy | |
N OD1 | 20781 | 0.83 | 21762 | 0.87 | 31502 | 1.26 |
N HD21 | 9753 | 0.39 | 9921 | 0.40 | 9129 | 0.37 |
N HD22 | 11447 | 0.46 | 11256 | 0.45 | 12395 | 0.50 |
n(D) OD1 | 57158 | 2.29 | 49515 | 1.98 | 61687 | 2.47 |
n(D) OD2 | 47961 | 1.92 | 54397 | 2.18 | 64314 | 2.57 |
Panel B in Fig. 4 shows the locations of hydrogen bonding
The frames count is the number of instances in which the hydrogen bonding was found during the trajectory. Occupancy is defined as the percentage one hydrogen bond donor is within a distance of 3.0 Å and an angle cutoff of 135° of one hydrogen bond acceptor. Occupancies >1 occur when an atom hydrogen bonds to multiple waters at the same time satisfying the above criteria.