Binding site | Binding energy (kcal/mol) | Nef residues within 4Â Ã… of DQBS |
---|---|---|
Nef dimer | ||
1 | −9.0 | Nef subunit 1 (blue in Figure 8): Gln104, Asp108, Pro122, Asp123 |
 |  | Nef subunit 2 (green in Figure 8): Gln104, Asp108, Gln107, Asp111, Leu112, Pro122, Gln125, Asn126, Tyr127 |
2 | −8.3 | Pro78, Met79, Thr80, Tyr81, Asp123, Trp124, Asn126, Leu137, Thr138, Phe129, Tyr202 |
Nef monomer | ||
1 | −7.9 | Gln104, Gln107, Gln125, Asn126, Tyr127, Thr128, Pro129, Arg134, Leu137, Tyr202 |
2 | −7.9 | Met79, Tyr82, Asn126, Leu137, Thr138, Phe139, His193, Tyr202, Phe203 |
3 | −7.7 | Leu91, Lys94, Gly95, Gly96, Leu97, Leu100, Arg106, Ile109, Leu110, Trp113 |