Summary for 6MSY
| Entry DOI | 10.2210/pdb6msy/pdb |
| Descriptor | Fab 2G12, light chain, Fab 2g12, heavy chain, alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose, ... (6 entities in total) |
| Functional Keywords | hiv-1 carbohydrate broadly neutralizing antibody, hiv neutralizing antibody, anti-carbohydrate, domain-swapping, immune system |
| Biological source | Homo sapiens (Human) More |
| Total number of polymer chains | 2 |
| Total formula weight | 47904.34 |
| Authors | Calarese, D.A.,Stanfield, R.L.,Wilson, I.A. (deposition date: 2018-10-18, release date: 2018-11-21, Last modification date: 2024-10-09) |
| Primary citation | Calarese, D.A.,Lee, H.K.,Huang, C.Y.,Best, M.D.,Astronomo, R.D.,Stanfield, R.L.,Katinger, H.,Burton, D.R.,Wong, C.H.,Wilson, I.A. Dissection of the carbohydrate specificity of the broadly neutralizing anti-HIV-1 antibody 2G12. Proc. Natl. Acad. Sci. U.S.A., 102:13372-13377, 2005 Cited by PubMed Abstract: Human antibody 2G12 neutralizes a broad range of HIV-1 isolates. Hence, molecular characterization of its epitope, which corresponds to a conserved cluster of oligomannoses on the viral envelope glycoprotein gp120, is a high priority in HIV vaccine design. A prior crystal structure of 2G12 in complex with Man(9)GlcNAc(2) highlighted the central importance of the D1 arm in antibody binding. To characterize the specificity of 2G12 more precisely, we performed solution-phase ELISA, carbohydrate microarray analysis, and cocrystallized Fab 2G12 with four different oligomannose derivatives (Man(4), Man(5), Man(7), and Man(8)) that compete with gp120 for binding to 2G12. Our combined studies reveal that 2G12 is capable of binding both the D1 and D3 arms of the Man(9)GlcNAc(2) moiety, which would provide more flexibility to make the required multivalent interactions between the antibody and the gp120 oligomannose cluster than thought previously. These results have important consequences for the design of immunogens to elicit 2G12-like neutralizing antibodies as a component of an HIV vaccine. PubMed: 16174734DOI: 10.1073/pnas.0505763102 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.999 Å) |
Structure validation
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