7TN9

Structure of the Inmazeb cocktail and resistance to escape against Ebola virus


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Structure of the Inmazeb cocktail and resistance to Ebola virus escape.

Rayaprolu, V.Fulton, B.O.Rafique, A.Arturo, E.Williams, D.Hariharan, C.Callaway, H.Parvate, A.Schendel, S.L.Parekh, D.Hui, S.Shaffer, K.Pascal, K.E.Wloga, E.Giordano, S.Negron, N.Ni, M.Copin, R.Atwal, G.S.Franklin, M.Boytz, R.M.Donahue, C.Davey, R.Baum, A.Kyratsous, C.A.Saphire, E.O.

(2023) Cell Host Microbe 31: 260

  • DOI: https://doi.org/10.1016/j.chom.2023.01.002
  • Primary Citation of Related Structures:  
    7TN9

  • PubMed Abstract: 

    Monoclonal antibodies can provide important pre- or post-exposure protection against infectious disease for those not yet vaccinated or in individuals that fail to mount a protective immune response after vaccination. Inmazeb (REGN-EB3), a three-antibody cocktail against Ebola virus, lessened disease and improved survival in a controlled trial. Here, we present the cryo-EM structure at 3.1 Å of the Ebola virus glycoprotein, determined without symmetry averaging, in a simultaneous complex with the antibodies in the Inmazeb cocktail. This structure allows the modeling of previously disordered portions of the glycoprotein glycan cap, maps the non-overlapping epitopes of Inmazeb, and illuminates the basis for complementary activities and residues critical for resistance to escape by these and other clinically relevant antibodies. We further provide direct evidence that Inmazeb protects against the rapid emergence of escape mutants, whereas monotherapies even against conserved epitopes do not, supporting the benefit of a cocktail versus a monotherapy approach.


  • Organizational Affiliation

    La Jolla Institute for Immunology, La Jolla, CA 92037, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3471 heavy chainA,
S [auth C],
T [auth E]
217Mus musculusMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoproteinB [auth T],
C [auth S],
D [auth U]
321Ebola virus - Mayinga, Zaire, 1976Mutation(s): 0 
Gene Names: GP
UniProt
Find proteins for Q05320 (Zaire ebolavirus (strain Mayinga-76))
Explore Q05320 
Go to UniProtKB:  Q05320
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UniProt GroupQ05320
Glycosylation
Glycosylation Sites: 3
Sequence Annotations
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3479 light chainE [auth R],
F [auth N],
M [auth P]
213Mus musculusMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3471 light chainG [auth F],
U [auth B],
V [auth D]
220Mus musculusMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
GP2H [auth W],
O [auth V],
P [auth X]
140Ebola virus - Mayinga, Zaire, 1976Mutation(s): 0 
Gene Names: GP
UniProt
Find proteins for Q05320 (Zaire ebolavirus (strain Mayinga-76))
Explore Q05320 
Go to UniProtKB:  Q05320
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UniProt GroupQ05320
Glycosylation
Glycosylation Sites: 1
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3479 heavy chainI [auth Q],
J [auth M],
N [auth O]
217Mus musculusMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3470 heavy chainK [auth G],
Q [auth I]
215Mus musculusMutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
REGN3470 light chainL [auth H],
R [auth J]
215Mus musculusMutation(s): 0 
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Oligosaccharides

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Entity ID: 9
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseW [auth K],
X [auth L],
Y
6N-Glycosylation
Glycosylation Resources
GlyTouCan:  G34442SS
GlyCosmos:  G34442SS
GlyGen:  G34442SS
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
AA [auth T]
BA [auth T]
CA [auth S]
DA [auth S]
EA [auth U]
AA [auth T],
BA [auth T],
CA [auth S],
DA [auth S],
EA [auth U],
FA [auth U],
GA [auth U],
Z [auth T]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC2.12
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesU19 AI142790
Department of Health & Human Services (HHS)United StatesHHSO100201700016C
Department of Health & Human Services (HHS)United StatesHHSO100201700020C

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-25
    Type: Initial release
  • Version 1.1: 2023-02-08
    Changes: Database references
  • Version 1.2: 2023-02-22
    Changes: Database references
  • Version 1.3: 2024-11-20
    Changes: Data collection, Refinement description, Structure summary