Fig. 5: Ab1303 and Ab1573 bind an Env trimeric state distinct from the closed and CD4-bound open trimer conformations. | Nature Communications

Fig. 5: Ab1303 and Ab1573 bind an Env trimeric state distinct from the closed and CD4-bound open trimer conformations.

From: Neutralizing antibodies induced in immunized macaques recognize the CD4-binding site on an occluded-open HIV-1 envelope trimer

Fig. 5

a,b Ab1303 (a) or Ab1573 (b) contacts mapped onto a side-view surface representation of a closed BG505 trimer (PDB code 5CEZ) (left) and the occluded-open trimer to which each mAb binds (right). Regions of the antibody epitope that are buried in the closed state but accessible in the Ab1303- or Ab1573-bound state are outlined in red on the occluded-open Env trimer structures. c, d Cartoon representations of Ab1303 (c) or Ab1573 (d) interacting with closed (left) or occluded-open (right) Env trimers (seen from the top). Regions with steric clashes between the Fab and the closed trimer indicated by dashed, red ovals. e Comparison of inter-protomer distances of Cα atoms from selected residues at the CD4bs (yellow), the V1V2 base (orange), and the V3 base (blue) in a closed Env trimer (PDB 5T3Z), Ab1303-bound BG505 trimer, Ab1573-bound BG505 trimer, b12-bound B41 trimer (PDB 5VN8), a CD4-bound asymmetrically-open BG505 trimer (PDB 6U0L), and a sCD4-bound symmetrically-open B41 trimer (PDB 5VN3).

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