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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | DH272.2 Fab in Complex with CH848 TF DS SOSIP Env | |||||||||
![]() | DH272.2 Fab bound to CH848 TF DS SOSIP Env | |||||||||
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Biological species | ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / negative staining / Resolution: 14.35 Å | |||||||||
![]() | Fera D | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Analysis of two cooperating antibodies unveils immune pressure imposed on HIV Env to elicit a V3-glycan supersite broadly neutralizing antibody lineage. Authors: Maxwell T Finkelstein / Emma Parker Miller / Molly C Erdman / Daniela Fera / ![]() Abstract: Elicitation of broadly neutralizing antibodies (bnAbs) is a goal of vaccine design as a strategy for targeting highly divergent strains of HIV-1. Current HIV-1 vaccine design efforts seek to elicit ...Elicitation of broadly neutralizing antibodies (bnAbs) is a goal of vaccine design as a strategy for targeting highly divergent strains of HIV-1. Current HIV-1 vaccine design efforts seek to elicit bnAbs by first eliciting their precursors through prime-boost regimens. This requires an understanding of the co-evolution between viruses and antibodies. Towards this goal, we have analyzed two cooperating antibodies, DH475 and DH272, which exerted pressure on the HIV population in an infected donor, called CH848, to evolve in such a way that it became sensitive to the V3-glycan supersite DH270 bnAb lineage. We obtained a 2.90Å crystal structure of DH475 in complex with the Man glycan and a negative stain EM model of DH272 in complex with the HIV-1 spike trimer, Env. Coupled with additional modeling studies and biochemical data, our studies reveal that DH475 contacts a V3- and V4-glycan dependent epitope accessible on an open or shed Env and that DH272 makes critical contacts with the V1V2 and V3 loops on HIV-1 Env. Using these data, we suggest a prime-boost regimen that may facilitate the initiation of DH270-like bnAb precursors. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 14.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 12.6 KB 12.6 KB | Display Display | ![]() |
Images | ![]() | 13.8 KB | ||
Others | ![]() ![]() | 26.6 MB 26.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 690.3 KB | Display | ![]() |
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Full document | ![]() | 689.9 KB | Display | |
Data in XML | ![]() | 10.3 KB | Display | |
Data in CIF | ![]() | 11.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | DH272.2 Fab bound to CH848 TF DS SOSIP Env | ||||||||||||||||||||
Voxel size | X=Y=Z: 3 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: DH272.2 Fab bound to CH848 TF DS SOSIP Env
File | emd_28120_half_map_1.map | ||||||||||||
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Annotation | DH272.2 Fab bound to CH848 TF DS SOSIP Env | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: DH272.2 Fab bound to CH848 TF DS SOSIP Env
File | emd_28120_half_map_2.map | ||||||||||||
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Annotation | DH272.2 Fab bound to CH848 TF DS SOSIP Env | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Complex between DH272.2 Fab and CH848 TF DS SOSIP Env
Entire | Name: Complex between DH272.2 Fab and CH848 TF DS SOSIP Env |
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Components |
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-Supramolecule #1: Complex between DH272.2 Fab and CH848 TF DS SOSIP Env
Supramolecule | Name: Complex between DH272.2 Fab and CH848 TF DS SOSIP Env / type: complex / Chimera: Yes / ID: 1 / Parent: 0 |
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-Supramolecule #2: DH272.2 Fab
Supramolecule | Name: DH272.2 Fab / type: complex / Chimera: Yes / ID: 2 / Parent: 1 |
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Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() |
-Supramolecule #3: CH848 TF DS SOSIP Env
Supramolecule | Name: CH848 TF DS SOSIP Env / type: complex / Chimera: Yes / ID: 3 / Parent: 1 |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() |
-Experimental details
-Structure determination
Method | negative staining |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Staining | Type: NEGATIVE / Material: Uranyl Formate |
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Electron microscopy
Microscope | FEI TECNAI F20 |
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Image recording | Film or detector model: OTHER / Average electron dose: 25.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 3.0 µm |
Experimental equipment | ![]() Model: Tecnai F20 / Image courtesy: FEI Company |
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Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 14.35 Å / Resolution method: FSC 0.5 CUT-OFF / Number images used: 19124 |
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Initial angle assignment | Type: NOT APPLICABLE |
Final angle assignment | Type: NOT APPLICABLE |