TABLE 3.
SIA-VP interactions in AAV5 capsida
| Amino acid residue for AAV serotype (receptor type)b: |
A- or B-site or GOL interactions |
|||||||
|---|---|---|---|---|---|---|---|---|
| 1 (SIA) | 2 (HS) | 3 (HS) | 4 (SIA) | 5 (SIA) | 6 (SIA/HS) | AAV5 VP1 atom | SIA or GOL atomb | VP monomer |
| A-site interactions | ||||||||
| V | V | V | L | Mc | V | M569 (CG) | O1B | REF |
| A | S | A | P | A | A | A570 (O) | O4 | |
| V | T | N | G | T | V | T571 (CG2) | C3 | |
| G | A | R | D | G | G | G583 (O) | O1B | |
| D | D | T | R | T | D | T584 (O) | O1A | |
| V | V | V | L | Y | V | Y585 (N) | O1A | |
| A | T | D | A | L | V | L587 (CD2) | O9 | |
| D | D | T | R | T | D | T584 (O) | O1θ | 3F |
| V | V | V | L | Y | V | Y585 (CA) | C11 | |
| H | N | N | T | N | H | N586 (ND2) | O4 | |
| A | T | D | A | L | V | L587 (CD2) | C11 | |
| B-site interactions | ||||||||
| R | R | R | R | R | R | R277 (NE) | O1θ | REF |
| H | H | H | H | H | H | H279 (NE2) | O1θ | |
| C | C | C | C | S | C | S280 (OG) | C11 | |
| Q | Q | Q | E | E | Q | E350 (C) | O7 | |
| G | G | G | G | G | G | G351 (CA) | C7 | |
| C | C | C | S | C | C | C352 (CB) | C11 | |
| L | L | L | L | L | L | L353 (O) | C11 | |
| P | P | P | P | P | P | P354 (CA) | O1B | |
| D | D | D | D | Q | D | Q359 (NE2) | O1B | |
| F | F | F | F | F | F | F361 (CD1) | O8 | |
| M | M | M | M | T | M | T362 (O) | O9 | |
| S | G | G | Q | P | S | P533 (CG) | O1A | |
| F | F | F | F | F | F | F650 (CE2) | C9 | 5F |
| S | S | S | S | S | S | S651 (O) | O9 | |
| A | A | P | S | D | A | D652 (OD2) | C3 | |
| Glycerol interactions | ||||||||
| R | R | R | R | R | R | R277 (NH2) | O1 | REF |
| F | F | F | F | F | F | F529 (CB) | O2 | |
| G | G | G | A | N | G | N530 (O) | C3 | |
| K | K | K | G | S | K | S531 (O) | C3 | |
| M | M | M | I | L | M | L548 (CD2) | O3 | |
| Q | Q | Q | Q | Q | Q | Q604 (CG) | O3 | |
| E | E | E | E | T | E | T711 (OG1) | O3 | |
a
Interaction distance within 3.6 Å.
b
Receptor type for the particular AAV serotype in parentheses.
c
Amino acid residues mutated in this study are in boldface and underlined.