8COI image
Deposition Date 2023-02-28
Release Date 2023-12-27
Last Version Date 2024-03-20
Entry Detail
PDB ID:
8COI
Keywords:
Title:
Human adenovirus-derived synthetic ADDobody binder
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.17 Å
R-Value Free:
0.26
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
P 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:ADDobody
Chain IDs:A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T
Chain Length:310
Number of Molecules:20
Biological Source:Human adenovirus sp.
Ligand Molecules
Primary Citation
Engineering the ADDobody protein scaffold for generation of high-avidity ADDomer super-binders.
Structure 32 342 ? (2024)
PMID: 38198950 DOI: 10.1016/j.str.2023.12.010

Abstact

Adenovirus-derived nanoparticles (ADDomer) comprise 60 copies of adenovirus penton base protein (PBP). ADDomer is thermostable, rendering the storage, transport, and deployment of ADDomer-based therapeutics independent of a cold chain. To expand the scope of ADDomers for new applications, we engineered ADDobodies, representing PBP crown domain, genetically separated from PBP multimerization domain. We inserted heterologous sequences into hyper-variable loops, resulting in monomeric, thermostable ADDobodies expressed at high yields in Escherichia coli. The X-ray structure of an ADDobody prototype validated our design. ADDobodies can be used in ribosome display experiments to select a specific binder against a target, with an enrichment factor of ∼104-fold per round. ADDobodies can be re-converted into ADDomers by genetically reconnecting the selected ADDobody with the PBP multimerization domain from a different species, giving rise to a multivalent nanoparticle, called Chimera, confirmed by a 2.2 Å electron cryo-microscopy structure. Chimera comprises 60 binding sites, resulting in ultra-high, picomolar avidity to the target.

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Primary Citation of related structures