Table 3. Compressed sensing (CS), mutual information (MI), and ensemble classifier predictions of HIV-1 Env positions constituting bnMAb epitopes for PGT 135, 143, and 145.
| bnMAb | CS classifier | MI classifier | Ensemble classifier | Experiment | |||||
| nCS | position | residue | nMI | nCS | position | residue | nMI | ||
| PGT-135 | 22 | 133 | Ala | 1 | 334 | 1 | 334 | 6 | 297 |
| 171 | Thr | 330 | |||||||
| 185 | Ala | 332 | |||||||
| 330 | His | 334 | |||||||
| 334 | Ser | 392 | |||||||
| 335 | Asx | 394 | |||||||
| 344 | Gly | ||||||||
| 346 | Ser | ||||||||
| 351 | Ala | ||||||||
| 363 | Ser | ||||||||
| 389 | Gly | ||||||||
| 389 | Lys | ||||||||
| 426 | Leu | ||||||||
| 430 | Ile | ||||||||
| 489 | Ile | ||||||||
| 489 | Val | ||||||||
| 733 | Ile | ||||||||
| 733 | Thr | ||||||||
| 752 | Leu | ||||||||
| 815 | Val | ||||||||
| 832 | Gly | ||||||||
| 840 | Val | ||||||||
| PGT-143 | 16 | 47 | Asx | 1 | 166 | 1 | 166 | 2 | 160 |
| 51 | Ser | 166 | |||||||
| 166 | Arg | ||||||||
| 167 | Asp | ||||||||
| 171 | Lys | ||||||||
| 182 | Thr | ||||||||
| 240 | His | ||||||||
| 252 | Arg | ||||||||
| 252 | Lys | ||||||||
| 269 | Asx | ||||||||
| 360 | Asn | ||||||||
| 389 | Ser | ||||||||
| 491 | Val | ||||||||
| 668 | Asn | ||||||||
| 671 | Asp | ||||||||
| 817 | Ile | ||||||||
| PGT-145 | 6 | 130 | Asn | 3 | 160 | 2 | 160 | 1 | 160 |
| 130 | Lys | 162 | 166 | ||||||
| 160 | Asn | 166 | |||||||
| 166 | Arg | ||||||||
| 500 | Lys | ||||||||
| 677 | Asn | ||||||||
The experimentally identified positions are defined as those at which alanine point mutations were observed to increase the measured IC50 of the mutant by more than 30-fold relative to that of the wild type JR-CSF. Alanine scans were performed as part of the present work for PGT 143 and 145; data for PGT 121–135 were taken from Ref. [51].
Footnote: See footnote to Table 1.