TABLE 2.
Substrate-protease hydrogen bonds formed by the two NC-p1 substrates
| Substrate atom | Protein atom | Length (Å) of hydrogen bond
|
D1 − D2a | Average bond length (Å)b | |
|---|---|---|---|---|---|
| WTNC-p1WT (D1) | AP2VNC-p1V82A (D2) | ||||
| AlaP4 O | Gly48 N | 3.2 | 3 | + | 3 |
| AlaP4 N | Asp30 OD2 | 2.9 | + | ||
| AlaP3 N | Asp29 OD2 | 3.5 | 3.3 | + | 2.9 |
| AlaP3 O | Asp29 N | 3.6 | 2.8 | + | 3 |
| Ala/ValP2 N | Gly48 O | 3.2 | 2.8 | + | 2.9 |
| AsnP1 N | Gly27 O | 3.2 | 2.8 | + | 2.8 |
| AsnP1 ND2 | Gly27 O | 3.5 | + | ||
| AsnP1 O | Asn25 ND2 | 3.2 | 2.5 | + | 2.7 |
| LeuP2′ N | Gly27′ O | 3.2 | 2.9 | + | 3 |
| LeuP2′ O | Asp29′ N | 3.1 | 2.9 | + | 3.2 |
| LeuP2′ O | Asp29′ OD2 | 3.6 | − | ||
| GlyP3′ N | Gly48′ O | 3.1 | 2.8 | + | 2.8 |
| GlyP3′ O | Gly48′ N | 3.1 | 2.8 | + | 3 |
| GlyP3′ O | Asp30′ OD2 | 3.3 | + | ||
| AlaP4′ N | Asp29′ OD2 | 3.6 | 3 | + | 2.9 |
| AlaP4′ N | Asp30′ OD2 | 3.5 | − | ||
| AlaP4′ O | Asp30′ OD2 | 2.4 | − | ||
| AlaP5′ N | Asp30′ OD2 | 3.3 | |||
| AlaP6′ N | Met46′ O | 2.5 | |||
| AlaP6′ O | Met46′ N | 2.8 | |||
a
+, hydrogen bond is longer in the WTNC-p1WT complex than in the AP2VNC-p1V82A complex; −, hydrogen bond is shorter in the WTNC-p1WT complex than in the AP2VNC-p1V82A complex. Note that if no distance is listed for a particular interaction, it is because that distance is well beyond hydrogen bonding distance.