Table 1.
The binding interactions between the residues of the PCTD and the residues of the dimeric N protein binding site
| Interaction | P residues | Atoms | N residues (subunits 1 and 2) | Atoms |
|---|---|---|---|---|
| Hydrophobic | LEU214 | Side chain | THR361(1) | Side chain |
| H bond | GLN215 | NE2 | ASP359(1) | OD1 |
| H bond | GLN215 | OE1 | SER360(1) | N |
| Hydrophobic | LEU217 | Side chain | LEU364(1) | Side chain |
| Hydrophobic | ILE219 | Side chain | LEU364(1) | Side chain |
| H bond | SER233 | O | THR365(2) | OG1 |
| H bond | VAL234 | O | LEU364(2) | N |
| Hydrophobic | GLY235 | CA | LEU364(2) | Side chain |
| H bond | ARG251 | NH1, NH2 | THR365(2) | OG |
| H bond | LYS253 | NZ | ASN367(1) | ND2 |
| H bond | Lys254 | NZ | ASP384(1) | OD2 |
| H bond | Lys254 | NZ | ASP384(1) | O |
| H bond | Lys254 | O | ASN386(1) | ND2 |
| Hydrophobic | LEU255 | Side chain | THR366(1) | Side chain |
| H bond | TYR256 | OH | ASP358(2) | O |
| H bond | TYR256 | N | ASP384(1) | OD1 |
| H bond | ASN257 | ND2 | ASP359(2) | OD1 |
| H bond | ASN257 | ND2 | ASP359(2) | OD2 |
| H bond | ASN257 | ND2 | LYS354(2) | NZ |
| H bond | ASN257 | ND2 | GLU383(1) | OE2 |
| H bond | ASN257 | OD1 | ASP359(2) | OD1 |
| H bond | ASN257 | OD1 | ASP359(2) | OD2 |
| H bond | ASN257 | OD1 | SER360(2) | OG |
| H bond | ASN257 | OD1 | ASP384(1) | OD1 |
| H bond | ASN257 | N | ASP384(1) | OD1 |
| H bond | GLN258 | N | ASP384(1) | OD1 |
| H bond | ARG260 | NH1 | ASP358(2) | OD1 |
| Hydrophobic | VAL261 | Side chain | VAL367(1) | Side chain |
| H bond | LYS262 | NZ | GLU377(1) | OE2 |
| H bond | TYR263 | OH | GLY362(1) | N |
The numbers 1 and 2 shown in parentheses adjacent to N protein residue names and numbers refer to molecule 1 or 2, respectively, of the N dimer. The list of residues was compiled with the aid of the Protein Interfaces, Surfaces, and Assemblies (PISA) server (42) and visual inspection with COOT (36).