title: Structure of 2G12 Fab2 in complex with soluble and fully glycosylated HIV-1 Env by negative-stain single-particle electron microscopy.
abstract: The neutralizing anti-HIV-1 antibody 2G12 is of particular interest due to the sterilizing protection it provides from viral challenge in animal models. 2G12 is a unique, domain-exchanged antibody that binds exclusively to conserved N-linked glycans that form the high-mannose patch on the gp120 outer domain centered on a glycan at position N332. Several glycans in and around the 2G12 epitope have been shown to interact with other potent, broadly neutralizing antibodies; therefore, this region constitutes a supersite of vulnerability on gp120. While crystal structures of 2G12 and 2G12 bound to high-mannose glycans have been solved, no structural information that describes the interaction of 2G12 with gp120 or the Env trimer is available. Here, we present a negative-stain single-particle electron microscopy reconstruction of 2G12 Fab2 in complex with a soluble, trimeric Env at ∼17-Å resolution that reveals the antibody's interaction with its native and fully glycosylated epitope. We also mapped relevant glycans in this epitope by fitting high-resolution crystal structures and by performing neutralization assays of glycan knockouts. In addition, a reconstruction at ∼26 Å of the ternary complex formed by 2G12 Fab2, soluble CD4, and Env indicates that 2G12 may block membrane fusion by induced steric hindrance upon primary receptor binding, thereby abrogating Env's interaction with coreceptor(s). These structures provide a basis for understanding 2G12 binding and neutralization, and our low-resolution model and glycan assignments provide a basis for higher-resolution studies to determine the molecular nature of the 2G12 epitope.
  
  
  OBJECTIVE
  HIV-1 is a human virus that results in the deaths of millions of people around the world each year. While there are several effective therapeutics available to prolong life, a vaccine is the best long-term solution for curbing this global epidemic. Here, we present structural data that reveal the viral binding site of one of the first HIV-1-neutralizing antibodies isolated, 2G12, and provide a rationale for its effectiveness. These structures provide a basis for higher-resolution studies to determine the molecular nature of the 2G12 epitope, which will aid in vaccine design and antibody-based therapies.
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California, USA.
authors: Charles D
authors: CD
authors: Murin
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA.
authors: Jean-Philippe
authors: JP
authors: Julien
authors: International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California, USA.
authors: Devin
authors: D
authors: Sok
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA.
authors: Robyn L
authors: RL
authors: Stanfield
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.
authors: Reza
authors: R
authors: Khayat
authors: Department of Microbiology and Immunology, Weill Medical College of Cornell University, New York, New York, USA.
authors: Albert
authors: A
authors: Cupo
authors: Department of Microbiology and Immunology, Weill Medical College of Cornell University, New York, New York, USA.
authors: John P
authors: JP
authors: Moore
authors: International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California, USA Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.
authors: Dennis R
authors: DR
authors: Burton
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, California, USA.
authors: Ian A
authors: IA
authors: Wilson
authors: Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA International AIDS Vaccine Initiative Neutralizing Antibody Center and Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute, La Jolla, California, USA abward@scripps.edu.
authors: Andrew B
authors: AB
authors: Ward
mesh_terms: D057134:Antibodies, Neutralizing / Q000737:chemistry / Q000378:metabolism; D015483:HIV Antibodies / Q000737:chemistry* / Q000378:metabolism*; D007091:Image Processing, Computer-Assisted; D007140:Immunoglobulin Fab Fragments / Q000737:chemistry* / Q000378:metabolism*; D046911:Macromolecular Substances / Q000648:ultrastructure*; D008854:Microscopy, Electron; D011485:Protein Binding; D054730:Protein Interaction Domains and Motifs; D055503:Protein Multimerization; D013194:Staining and Labeling / Q000379:methods; D054299:env Gene Products, Human Immunodeficiency Virus / Q000737:chemistry* / Q000378:metabolism*
chemical_list: D057134:Antibodies, Neutralizing; D015483:HIV Antibodies; D007140:Immunoglobulin Fab Fragments; D046911:Macromolecular Substances; D054299:env Gene Products, Human Immunodeficiency Virus