Table 2. Potential hydrogen bonds of U5P and UDP with RNase A in the crystal.
Values in parentheses are distances in Å. Asterisks indicate residues from a symmetry-related protein molecule.
| RNase A–U5P complex | RNase A–UDP complex | ||||
|---|---|---|---|---|---|
| U5P/UDP atom | Mol A | Mol B | Mol A | Mol B | Mol C |
| O2 | Thr45 N (2.9) | Asn71 Nδ2 (2.9) | Thr45 N (2.9) | Asn71 Nδ2 (2.8) | Asn34 Nδ2 (2.7) |
| O2 | Glu111 O∊2 (3.2) | Gln69 N∊2 (3.3) | |||
| O4 | Water7 (3.2) | Asn67 Oδ1 (3.2) | Water35 (2.9) | Asn67 Oδ1 (3.1) | Water108 (2.7) |
| O4 | Water43 (2.8) | Asn67 Nδ2 (3.4) | Water49 (3.3) | Asn67 Nδ2 (3.1) | |
| O4 | Water15 (2.8) | Water10 (2.7) | |||
| N3 | Thr45 Oγ1 (2.8) | Gln69 O∊1 (3.4) | Thr45 Oγ1 (2.7) | Tyr76 Oη* (2.7) | |
| O2′ | His12 N∊2 (3.3) | His12 N∊2 (3.2) | Arg10 Nη1 (3.2) | ||
| O2′ | Water20 (3.1) | Lys41 Nζ (3.0) | |||
| O2′ | Water207 (3.0) | Water371 (3.0) | |||
| O2′ | Water215 (2.8) | ||||
| O3′ | Water207 (2.7) | Glu111 O∊1 (3.1) | |||
| O3′ | Water286 (2.7) | Water230 (3.0) | |||
| O3′ | Water364 (3.2) | ||||
| O4′ | Water38 (3.2) | Water20 (3.2) | Glu2 O∊1 (3.2) | ||
| O5′ | Water146 (3.3) | ||||
| O1A | Water146 (2.6) | Water263 (2.7) | Water355 (2.8) | ||
| O1P/O1B | Water175 (2.8) | Water286 (3.0) | Water221 (2.9) | ||
| O2P/O2B | Water236 (2.9) | Water207 (3.0) | His119 Nδ1 (2.9) | ||
| O2P/O2B | Water244 (2.8) | Water371 (2.7) | |||
| O3P/O3B | His119 Nδ1 (2.5) | Water221 (2.9) | |||
| O3P/O3B | Water120 (3.4) | Water20 (2.7) | |||
| O3P/O3B | Water236 (3.4) | Water207 (3.2) | |||