Synergy and allostery in ligand binding by HIV-1 Nef.Aldehaiman, A., Momin, A.A., Restouin, A., Wang, L., Shi, X., Aljedani, S., Opi, S., Lugari, A., Shahul Hameed, U.F., Ponchon, L., Morelli, X., Huang, M., Dumas, C., Collette, Y., Arold, S.T.
(2021) Biochem J 478: 1525-1545
- PubMed: 33787846
- DOI: 10.1042/BCJ20201002
- Primary Citation of Related Structures:
3H0F, 3H0H, 3H0I, 4D8D, 6IPY, 6IPZ, 7D7S
- PubMed Abstract:
- The crystal structure of HIV-1 Nef protein bound to the Fyn kinase SH3 domain suggests a role for this complex in altered T cell receptor signaling.
Arold, S., Franken, P., Strub, M.P., Hoh, F., Benichou, S., Benarous, R., Dumas, C.
(1997) Structure 5: 1361
- Crystal structure of the conserved core of HIV-1 Nef complexed with a Src family SH3 domain.
Lee, C.H., Saksela, K., Mirza, U.A., Chait, B.T., Kuriyan, J.
(1996) Cell 85: 931
The Nef protein of human and simian immunodeficiency viruses boosts viral pathogenicity through its interactions with host cell proteins. By combining the polyvalency of its large unstructured regions with the binding selectivity and strength of its folded core domain, Nef can associate with many different host cell proteins, thereby disrupting their functions ...
The Nef protein of human and simian immunodeficiency viruses boosts viral pathogenicity through its interactions with host cell proteins. By combining the polyvalency of its large unstructured regions with the binding selectivity and strength of its folded core domain, Nef can associate with many different host cell proteins, thereby disrupting their functions. For example, the combination of a linear proline-rich motif and hydrophobic core domain surface allows Nef to bind tightly and specifically to SH3 domains of Src family kinases. We investigated whether the interplay between Nef's flexible regions and its core domain could allosterically influence ligand selection. We found that the flexible regions can associate with the core domain in different ways, producing distinct conformational states that alter the way in which Nef selects for SH3 domains and exposes some of its binding motifs. The ensuing crosstalk between ligands might promote functionally coherent Nef-bound protein ensembles by synergizing certain subsets of ligands while excluding others. We also combined proteomic and bioinformatics analyses to identify human proteins that select SH3 domains in the same way as Nef. We found that only 3% of clones from a whole-human fetal library displayed Nef-like SH3 selectivity. However, in most cases, this selectivity appears to be achieved by a canonical linear interaction rather than by a Nef-like 'tertiary' interaction. Our analysis supports the contention that Nef's mode of hijacking SH3 domains is a virus-specific adaptation with no or very few cellular counterparts. Thus, the Nef tertiary binding surface is a promising virus-specific drug target.
Centre de Biochimie Structurale, CNRS, INSERM, Université de Montpellier, 34090 Montpellier, France.