Table 2.
Frequencies of all polymorphisms at targeted positions in gp160a in the LANL HIV Sequence Databaseb among all isolates (N = 7560) and subtypes with ≥2% prevalence
| Polymorphisms, n (%) |
Subtypes |
||||||
|---|---|---|---|---|---|---|---|
| Position | amino acid | all isolates | B, N = 2651 | C, N = 1626 | CRF01_AE, N = 674 | A1, N = 273 | CRF02_AG, N = 199 |
| L116 | L | 7506 (99.3) | 2632 (99.3) | 1612 (99.1) | 670 (99.4) | 272 (99.6) | 199 (100) |
| I | 29 (0.4) | 11 (0.4) | 11 (0.7) | 4 (0.6) | 0 | 0 | |
| X | 8 (0.1) | 2 (<0.1) | 0 | 0 | 0 | 0 | |
| F | 4 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| P | 4 (<0.1) | 0 | 1 (<0.1) | 0 | 1 (0.4) | 0 | |
| V | 4 (<0.1) | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | |
| – | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| A | 1 (<0.1) | 0 | 1 (<0.1) | 0 | 0 | 0 | |
| E | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| M | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| R | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| A204 | A | 7358 (97.3) | 2564 (96.7) | 1580 (97.2) | 666 (98.8) | 265 (97.1) | 193 (97.0) |
| T | 102 (1.3) | 52 (2.0) | 16 (1.0) | 5 (0.7) | 3 (1.1) | 5 (2.5) | |
| S | 50 (0.7) | 18 (0.7) | 21 (1.3) | 0 | 1 (0.4) | 1 (0.5) | |
| X | 14 (0.2) | 8 (0.3) | 1 (<0.1) | 0 | 1 (0.4) | 0 | |
| P | 8 (0.1) | 1 (<0.1) | 4 (0.2) | 1 (0.1) | 1 (0.4) | 0 | |
| G | 7 (0.1) | 3 (0.1) | 1 (<0.1) | 0 | 1 (0.4) | 0 | |
| V | 5 (<0.1) | 2 (<0.1) | 0 | 0 | 0 | 0 | |
| – | 4 (<0.1) | 2 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | |
| D | 4 (<0.1) | 0 | 2 (0.1) | 0 | 1 (0.4) | 0 | |
| L | 4 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| E | 1 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| S375 | S | 5559 (73.5) | 1964 (74.1) | 1492 (91.8) | 2 (0.3) | 253 (92.7) | 178 (89.4) |
| H | 921 (12.2) | 18 (0.7) | 1 (<0.1) | 669 (99.3) | 0 | 0 | |
| T | 701 (9.3) | 473 (17.8) | 75 (4.6) | 0 | 12 (4.4) | 11 (5.5) | |
| N | 135 (1.8) | 102 (3.8) | 11 (0.7) | 1 (0.1) | 0 | 0 | |
| I | 97 (1.3) | 49 (1.8) | 19 (1.2) | 0 | 0 | 3 (1.5) | |
| M | 93 (1.2) | 27 (1.0) | 14 (0.9) | 0 | 6 (2.2) | 4 (2.0) | |
| X | 16 (0.2) | 10 (0.4) | 1 (<0.1) | 0 | 0 | 1 (0.5) | |
| R | 8 (0.1) | 4 (0.2) | 2 (0.1) | 0 | 1 (0.4) | 0 | |
| F | 7 (0.1) | 0 | 6 (0.4) | 0 | 0 | 0 | |
| – | 4 (<0.1) | 2 (<0.1) | 2 (0.1) | 0 | 0 | 0 | |
| Y | 4 (<0.1) | 0 | 1 (<0.1) | 2 (0.3) | 0 | 0 | |
| A | 3 (<0.1) | 0 | 0 | 0 | 1 (0.4) | 0 | |
| K | 3 (<0.1) | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 1 (0.5) | |
| V | 3 (<0.1) | 1 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | |
| C | 2 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| M426 | M | 6208 (82.1) | 1777 (67.0) | 1512 (93.0) | 648 (96.1) | 248 (90.8) | 188 (94.5) |
| R | 692 (9.2) | 596 (22.5) | 11 (0.7) | 2 (0.3) | 2 (0.7) | 0 | |
| L | 434 (5.7) | 212 (8.0) | 73 (4.5) | 19 (2.8) | 7 (2.6) | 7 (3.5) | |
| S | 52 (0.7) | 2 (<0.1) | 0 | 0 | 0 | 0 | |
| K | 45 (0.6) | 36 (1.4) | 0 | 0 | 0 | 1 (0.5) | |
| T | 38 (0.5) | 13 (0.5) | 12 (0.7) | 0 | 0 | 1 (0.5) | |
| V | 32 (0.4) | 3 (0.1) | 4 (0.2) | 1 (0.1) | 13 (4.8) | 0 | |
| I | 21 (0.3) | 2 (<0.1) | 6 (0.4) | 3 (0.4) | 2 (0.7) | 1 (0.5) | |
| X | 9 (0.1) | 4 (0.2) | 1 (<0.1) | 0 | 0 | 0 | |
| – | 7 (0.1) | 1 (<0.1) | 2 (0.1) | 0 | 0 | 0 | |
| A | 5 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | 0 | |
| W | 5 (<0.1) | 1 (<0.1) | 4 (0.2) | 0 | 0 | 0 | |
| Q | 4 (<0.1) | 1 (<0.1) | 0 | 0 | 1 (0.4) | 1 (0.5) | |
| C | 3 (<0.1) | 0 | 0 | 1 (0.1) | 0 | 0 | |
| G | 3 (<0.1) | 2 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | |
| P | 1 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| M434 | M | 6669 (88.2) | 2492 (94.0) | 1382 (85.0) | 640 (95.0) | 170 (62.3) | 162 (81.4) |
| I | 731 (9.7) | 134 (5.1) | 216 (13.3) | 27 (4.0) | 95 (34.8) | 36 (18.1) | |
| L | 55 (0.7) | 1 (<0.1) | 2 (0.1) | 1 (0.1) | 2 (0.7) | 0 | |
| T | 32 (0.4) | 16 (0.6) | 5 (0.3) | 0 | 3 (1.1) | 0 | |
| V | 27 (0.4) | 2 (<0.1) | 11 (0.7) | 0 | 2 (0.7) | 0 | |
| X | 12 (0.2) | 1 (<0.1) | 2 (0.1) | 0 | 1 (0.4) | 0 | |
| – | 6 (<0.1) | 0 | 1 (0.1) | 1 (0.1) | 0 | 0 | |
| K | 6 (<0.1) | 2 (<0.1) | 0 | 2 (0.3) | 0 | 0 | |
| F | 4 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| A | 3 (<0.1) | 1 (<0.1) | 0 | 1 (0.1) | 0 | 1 (0.5) | |
| P | 3 (<0.1) | 0 | 2 (0.1) | 0 | 0 | 0 | |
| R | 3 (<0.1) | 1 (<0.1) | 1 (0.1) | 0 | 0 | 0 | |
| G | 2 (<0.1) | 1 (<0.1) | 1 (0.1) | 0 | 0 | 0 | |
| N | 2 (<0.1) | 0 | 0 | 1 (0.1) | 0 | 0 | |
| Y | 2 (<0.1) | 0 | 2 (0.1) | 0 | 0 | 0 | |
| Q | 1 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| S | 1 (<0.1) | 0 | 1 (0.1) | 0 | 0 | 0 | |
| M475 | M | 6800 (89.9) | 2609 (98.4) | 1605 (98.7) | 147 (21.8) | 265 (97.1) | 196 (98.5) |
| I | 713 (9.4) | 33 (1.2) | 11 (0.7) | 514 (76.3) | 5 (1.8) | 2 (1.0) | |
| T | 13 (0.2) | 0 | 2 (0.1) | 6 (0.9) | 1 (0.4) | 0 | |
| L | 8 (0.1) | 2 (<0.1) | 1 (<0.1) | 3 (0.4) | 0 | 0 | |
| V | 7 (0.1) | 1 (<0.1) | 2 (0.1) | 2 (0.3) | 1 (0.4) | 0 | |
| D | 4 (<0.1) | 1 (<0.1) | 1 (<0.1) | 1 (0.1) | 0 | 0 | |
| R | 4 (<0.1) | 2 (<0.1) | 1 (<0.1) | 0 | 0 | 0 | |
| X | 4 (<0.1) | 1 (<0.1) | 0 | 1 (0.1) | 1 (0.4) | 0 | |
| K | 3 (<0.1) | 2 (<0.1) | 0 | 0 | 0 | 1 (0.5) | |
| – | 1 (<0.1) | 0 | 0 | 0 | 0 | 0 | |
| G | 1 (<0.1) | 0 | 1 (<0.1) | 0 | 0 | 0 | |
| N | 1 (<0.1) | 0 | 1 (<0.1) | 0 | 0 | 0 | |
| W | 1 (<0.1) | 0 | 1 (<0.1) | 0 | 0 | 0 | |
The top row for all amino acid positions shows the reference HXB2 sequence. Rows in bold show a frequency of at least 10%. Rows in italic identify specific amino acid polymorphisms known to be associated with reduced susceptibility to temsavir.1,3,8–10
a
Amino acid positions 116, 204, 375, 426, 434 and 475.
b
LANL database entries to 31 December 2019. Accessed October 2020.