Table 1 Target regions within Conserved Domain RT_rtv
From: An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1
Region No. | Residue Position (wild type) | Residue (wild type) | Function annotation | HXB2 coordinates | Mutation in RT2 and prevalence3 | Evaluated Region in MA4 |
|---|---|---|---|---|---|---|
1 | 24, 25 | W,P | DBS | 2619-2622 | - | 2610 - 2630 |
2 | 60 | V | - | 2727 | I(14) | 2700 - 2760 |
61 | F | AS | 2730 | - | ||
62 | A | - | 2733 | V(14) | ||
64 | K | - | 2736 | R(1.9) | ||
65 | K | dBS | 2742 | R(2.1) | ||
67 | D | - | 2748 | N(38), G(2.5) | ||
3 | 72 | R | dBS | 2763 | - | 2750 -2800 |
74-76, 78, 81 | L,V,D,R,N | DBS-AS | 2769-2790 | - | ||
4 | 89 | E | DBS-AS | 2814 | - | 2800 - 2840 |
90 | V | - | 2828 | I(3.3) | ||
91,92,94 | Q,L,I | DBS-AS | 2820-2829 | - | ||
5 | 100-103 | L,K,K,K | NNBS | 2847-2856 | - | 2835 - 2870 |
6 | 110-115 | D,V,G,D,A,Y | dBS-AS | 2877-2892 | - | 2865 - 2905 |
7 | 151 | Q | dBS-AS | 3000 | M(3.4) | 2985-3020 |
152,154,157 | G,K,P | DBS-AS | 3003-3018 | - | ||
8 | 178 | I | - | 3081 | M(7.5), L(6.4) | 3070-3130 |
179 | V | NNBS | 3084 | I(7.9), D(1.3) | ||
181 | Y | - | 3090 | C(14) | ||
183 | Y | NNBS-DBS-AS | 3096 | - | ||
184 | M | variable | 3099 | V(50), I(1.4) | ||
185 | D | dBS-AS | 3102 | - | ||
186 | D | AS | 3105 | - | ||
188 | Y | NNBS | 3111 | L(3.5) | ||
190 | G | NNBS | 3117 | - | ||
9 | 227 | F | NNBS | 3228 | L(1.6) | 3210-3255 |
228 | L | - | 3231 | H(12), R(4.2) | ||
230 | M | DBS-AS | 3237 | L(1.8) | ||
231 | G | DBS-AS | 3240 | - |