6WZT | pdb_00006wzt

CryoEM structure of influenza hemagglutinin A/Victoria/361/2011 in complex with cyno antibody 3B10


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 6WZT

This is version 1.2 of the entry. See complete history

Literature

Broad neutralization of H1 and H3 viruses by adjuvanted influenza HA stem vaccines in nonhuman primates.

Darricarrere, N.Qiu, Y.Kanekiyo, M.Creanga, A.Gillespie, R.A.Moin, S.M.Saleh, J.Sancho, J.Chou, T.H.Zhou, Y.Zhang, R.Dai, S.Moody, A.Saunders, K.O.Crank, M.C.Mascola, J.R.Graham, B.S.Wei, C.J.Nabel, G.J.

(2021) Sci Transl Med 13

  • DOI: https://doi.org/10.1126/scitranslmed.abe5449
  • Primary Citation Related Structures: 
    6WZT, 6XGC

  • PubMed Abstract: 

    Seasonal influenza vaccines confer protection against specific viral strains but have restricted breadth that limits their protective efficacy. The H1 and H3 subtypes of influenza A virus cause most of the seasonal epidemics observed in humans and are the major drivers of influenza A virus-associated mortality. The consequences of pandemic spread of COVID-19 underscore the public health importance of prospective vaccine development. Here, we show that headless hemagglutinin (HA) stabilized-stem immunogens presented on ferritin nanoparticles elicit broadly neutralizing antibody (bnAb) responses to diverse H1 and H3 viruses in nonhuman primates (NHPs) when delivered with a squalene-based oil-in-water emulsion adjuvant, AF03. The neutralization potency and breadth of antibodies isolated from NHPs were comparable to human bnAbs and extended to mismatched heterosubtypic influenza viruses. Although NHPs lack the immunoglobulin germline VH1-69 residues associated with the most prevalent human stem-directed bnAbs, other gene families compensated to generate bnAbs. Isolation and structural analyses of vaccine-induced bnAbs revealed extensive interaction with the fusion peptide on the HA stem, which is essential for viral entry. Antibodies elicited by these headless HA stabilized-stem vaccines neutralized diverse H1 and H3 influenza viruses and shared a mode of recognition analogous to human bnAbs, suggesting that these vaccines have the potential to confer broadly protective immunity against diverse viruses responsible for seasonal and pandemic influenza infections in humans.


  • Organizational Affiliation
    • Sanofi, 640 Memorial Drive, Cambridge, MA 02139, USA.

Macromolecule Content 

  • Total Structure Weight: 323.8 kDa 
  • Atom Count: 22,368 
  • Modeled Residue Count: 2,799 
  • Deposited Residue Count: 2,850 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
HemagglutininA,
D [auth B],
G [auth C]
503Influenza A virus (A/reassortant/NYMC X-217(A/Puerto Rico/8/1934 x A/Victoria/361/2011)(H3N2))Mutation(s): 0 
Gene Names: HAL998_47830gpHA
UniProt
Find proteins for A0A075EV12 (Influenza A virus)
Explore A0A075EV12 
Go to UniProtKB:  A0A075EV12
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A075EV12
Glycosylation
Glycosylation Sites: 7
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Cyno antibody heavy chainB [auth H],
E,
H [auth G]
233Macaca fascicularisMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Cyno antibody light chainC [auth L],
F [auth D],
I [auth F]
214Macaca fascicularisMutation(s): 0 

Oligosaccharides

Help  
Entity ID: 4
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
J [auth I],
M,
P,
S,
V,
J [auth I],
M,
P,
S,
V,
Y
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT
GlyCosmos: G42666HT
GlyGen: G42666HT
Entity ID: 5
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AA [auth a],
K [auth J],
L [auth K],
N,
O,
AA [auth a],
K [auth J],
L [auth K],
N,
O,
Q,
R,
T,
U,
W,
X,
Z
3N-Glycosylation
Glycosylation Resources
GlyTouCan: G15407YE
GlyCosmos: G15407YE
GlyGen: G15407YE

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-10
    Type: Initial release
  • Version 1.1: 2021-03-17
    Changes: Database references
  • Version 1.2: 2024-11-06
    Changes: Data collection, Database references, Refinement description, Structure summary