6APP

Anti-Marburgvirus Nucleoprotein Single Domain Antibody A Complexed with Nucleoprotein C-terminal domain

DOI: 10.2210/pdb6APP/pdb

Classification: IMMUNE SYSTEM
Organism(s): Lama glama, Marburg virus - Musoke, Kenya, 1980
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2017-08-17 Released: 2017-10-11
Deposition Author(s): Taylor, A.B., Garza, J.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.219
R-Value Work: 0.172
R-Value Observed: 0.176

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Unveiling a Drift Resistant Cryptotope withinMarburgvirusNucleoprotein Recognized by Llama Single-Domain Antibodies.

Garza, J.A., Taylor, A.B., Sherwood, L.J., Hart, P.J., Hayhurst, A.

(2017) Front Immunol 8: 1234-1234

PubMed: 29038656 Search on PubMedSearch on PubMed Central
DOI: 10.3389/fimmu.2017.01234
Primary Citation of Related Structures:
4W2O, 4W2P, 4W2Q, 6APP, 6APO, 6APQ

PubMed Abstract:

Marburg virus (MARV) is a highly lethal hemorrhagic fever virus that is increasingly re-emerging in Africa, has been imported to both Europe and the US, and is also a Tier 1 bioterror threat. As a negative sense RNA virus, MARV has error prone replication which can yield progeny capable of evading countermeasures. To evaluate this vulnerability, we sought to determine the epitopes of 4 llama single-domain antibodies (sdAbs or VHH) specific for nucleoprotein (NP), each capable of forming MARV monoclonal affinity reagent sandwich assays. Here, we show that all sdAb bound the C-terminal region of NP, which was produced recombinantly to derive X-ray crystal structures of the three best performing antibody-antigen complexes. The common epitope is a trio of alpha helices that form a novel asymmetric basin-like depression that accommodates each sdAb paratope via substantial complementarity-determining region (CDR) restructuring. Shared core contacts were complemented by unique accessory contacts on the sides and overlooks of the basin yielding very different approach routes for each sdAb to bind the antigen. The C-terminal region of MARV NP was unable to be crystallized alone and required engagement with sdAb to form crystals suggesting the antibodies acted as crystallization chaperones. While gross structural homology is apparent between the two most conserved helices of MARV and Ebolavirus , the positions and morphologies of the resulting basins were markedly different. Naturally occurring amino acid variations occurring in bat and human Marburgvirus strains all mapped to surfaces distant from the predicted sdAb contacts suggesting a vital role for the NP interface in virus replication. As an essential internal structural component potentially interfacing with a partner protein it is likely the C-terminal epitope remains hidden or "cryptic" until virion disruption occurs. Conservation of this epitope over 50 years of Marburgvirus evolution should make these sdAb useful foundations for diagnostics and therapeutics resistant to drift.

Organizational Affiliation:

Department of Virology and Immunology, Texas Biomedical Research Institute, San Antonio, TX, United States.

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Anti-Marburgvirus Nucleoprotein Single Domain Antibody A	A	126	Lama glama	Mutation(s): 0
Protein Feature View Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	B	106	Marburg virus - Musoke, Kenya, 1980	Mutation(s): 0 Gene Names: NP
Find proteins for P27588 (Lake Victoria marburgvirus (strain Musoke-80)) Explore P27588 Go to UniProtKB: P27588
Protein Feature View Expand
Reference Sequence