TABLE 1 .
Distances of the salt bridge interactions at the chain A-chain B interface of P domain of Fab2D3/MNV1 final conformations from the MDFF simulationsa
Chain A; open conformation | Chain B; closed conformation | Cryo-EM reconstruction R (Å) | Open conformation R (Å) | Closed conformation fitted R (Å) | Closed conformation V339I mutation R (Å) |
---|---|---|---|---|---|
ASP313 [OD1] | ARG 238 [NH1] | 3.57 | |||
ASP313 [OD2] | ARG 238 [NE] | 3.14 | |||
ASP313 [OD2] | ARG 238 [NH1] | 3.28 | |||
ASP313 [OD2] | ARG 238 [NH2] | 3.93 | |||
GLU338 [OE1] | ARG396 [NE] | 3.90 | |||
GLU338 [OE1] | ARG396 [NH1] | 2.76 | |||
GLU338 [OE1] | ARG396 [NH2] | 3.65 | 3.40 | ||
GLU338 [OE2] | ARG396 [NH1] | 2.63 | |||
GLU338 [OE2] | ARG396 [NH2] | 3.12 | 3.44 | ||
GLU338 [OE2] | ARG 437 [NH2] | 2.75 | |||
ARG396 [NH1] | GLU338 [OE1] | 2.85 | 3.92 | ||
ARG396 [NH1] | GLU338 [OE2] | 3.16 | 3.91 | 3.31 | |
ARG396 [NH2] | GLU338 [OE2] | 2.58 | 3.57 | 3.57 | |
ARG396 [NH2] | GLU338 [OE1] | 3.81 | 2.98 | ||
ARG396 [NE] | GLU338 [OE2] | 3.49 |
The structures are identified by the conformation of the P domain, A, B, and V339I mutation. Empty cells indicate the lack of interactions.