Table 1.
Inhibition of HIV-1 subtype C envelope pseudotype viruses by UCLA1 RNA aptamer
| Env clone | Subtype | Patient | Stage of infection | Tropism | Accession no. | % inhibition by 50 nM UCLA1a | IC50 (nM)b | TIc |
|---|---|---|---|---|---|---|---|---|
| HXB2.C8.3 | B | Adult | Chronic | X4 | AF358142 | 98.5 ± 1.73 | 0.17 | 5,882 |
| CAP63.2.00.A9J | C | Adult | Acute | R5 | EF203973 | 90.8 ± 3.24 | 0.14 | 7,143 |
| ZM233 M.PB6 | C | Adult | Acute | R5 | DQ388517 | 87.8 ± 4.98 | 0.04 | 25,000 |
| CAP210.2.00.E8 | C | Adult | Acute | R5 | DQ435683 | 87.5 ± 6.82 | 0.09 | 11,111 |
| Du156.12 | C | Adult | Acute | R5 | DQ411852 | 86.0 ± 2.37 | 0.63 | 1,587 |
| CAP85.2.00.09J | C | Adult | Acute | R5 | EF203985 | 84.5 ± 8.50 | 0.04 | 25,000 |
| ZM197.M.PB7 | C | Adult | Acute | R5 | DQ388515 | 83.7 ± 3.14 | 0.38 | 2,632 |
| Consensus C | C | Synthetic | R5 | DQ401075 | 82.8 ± 6.12 | 0.10 | 10,000 | |
| RP1.12 | C | Pediatric | Chronic | X4 | DQ447271 | 81.5 ± 8.66 | 0.60 | 1,667 |
| CAP256.2.00.C7J | C | Adult | Acute | R5 | EF203981 | 78.8 ± 3.41 | 0.16 | 6,250 |
| CAP45.2.00.G3J | C | Adult | Acute | R5 | DQ435682 | 77.0 ± 10.88 | 0.30 | 3,333 |
| CAP228.2.00.51J | C | Adult | Acute | R5 | EF203968 | 76.6 ± 6.06 | 0.31 | 3,226 |
| CAP61.2.00.E11J | C | Adult | Acute | R5 | EF203959 | 76.5 ± 1.73 | 0.38 | 2,632 |
| ZM214 M.PL15 | C | Adult | Acute | R5 | DQ388516 | 76.0 ± 1.15 | 0.23 | 4,348 |
| SW7.14 | C | Adult | Chronic | X4 | AF411966 | 74.5 ± 4.04 | 0.73 | 1,370 |
| TM3.8 | C | Pediatric | Chronic | R5 | DQ447268 | 74.2 ± 9.71 | 0.13 | 7,692 |
| ZM249 M.PL1 | C | Adult | Acute | R5 | DQ388514 | 74 0.0 ± 1.31 | 0.55 | 1,818 |
| CAP88.2.00.B5J | C | Adult | Acute | R5 | EF203972 | 73.8 ± 4.37 | 0.95 | 1,053 |
| Du172.17 | C | Adult | Acute | R5 | DQ411853 | 72.3 ± 8.12 | 0.60 | 1,667 |
| CAP239.2.00.F5J | C | Adult | Acute | R5 | EF203984 | 72.0 ± 8.35 | 0.19 | 5,263 |
| CAP255.2.00.16J | C | Adult | Acute | R5 | EF203982 | 70.0 ± 0.89 | 0.28 | 3,571 |
| Du422.1 | C | Adult | Acute | R5 | DQ411854 | 69.8 ± 4.96 | 0.33 | 3,030 |
| CAP08.2.00.F6J | C | Adult | Acute | R5 | EF203976 | 69.7 ± 1.37 | 0.95 | 1,053 |
| CAP206.2.00.8J | C | Adult | Acute | R5 | EF203967 | 68.2 ± 11.06 | 0.66 | 1,515 |
| CAP248.2.00 | C | Adult | Acute | R5 | FJ229824 | 68.0 ± 3.30 | 0.62 | 1,613 |
| RP6.6 | C | Pediatric | Chronic | R5 | DQ447269 | 67.5 ± 2.78 | 0.44 | 2,273 |
| CAP244.2.00.D3 | C | Adult | Acute | R5 | DQ435684 | 67.0 ± 1.15 | 0.44 | 2,273 |
| RP4.3 | C | Pediatric | Chronic | R5 | DQ447270 | 66.3 ± 6.71 | 0.48 | 2,083 |
| TM7.9 | C | Pediatric | Chronic | R5 | DQ447267 | 63.8 ± 1.58 | 0.16 | 6,250 |
| ZM53 M.PB12 | C | Adult | Acute | R5 | AY423984 | 62.0 ± 4.65 | 0.75 | 1,333 |
| COT9.6 | C | Pediatric | Chronic | R5 | DQ447272 | 46.3 ± 2.25 | NT | ND |
| CAP84.2.00.32J | C | Adult | Acute | R5 | EF203963 | 46.0 ± 3.78 | NT | ND |
| ZM109F.PB4 | C | Adult | Acute | R5 | AY424138 | 39.7 ± 9.48 | NT | ND |
| Du151.2 | C | Adult | Acute | R5 | DQ411851 | 33.0 ± 10.50 | NT | ND |
| Du123.6 | C | Adult | Acute | R5 | DQ411850 | 32.3 ± 13.69 | NT | ND |
| COT6.15 | C | Pediatric | Chronic | R5 | DQ447266 | 30.0 ± 8.08 | NT | ND |
Average percentage of inhibition of the respective Env-pseudotyped viruses by the UCLA1 aptamer used at a concentration of 50 nM. Viruses that exhibited more than 50% inhibition (values in boldface) were considered sensitive to neutralization. The average percentage of inhibition ± SD is shown for triplicate data.
IC50 is the concentration of the UCLA1 aptamer that inhibited entry of the respective viruses by 50%. Viruses for which titers were not determined (NT) and which exhibited less than 50% inhibition were considered not neutralized.
TI values were obtained by the general formula CC50/IC50. TIs could not be determined (ND) for viruses for which titers were not determined.