7UDS

Structure of lineage I (Pinneo) Lassa virus glycoprotein bound to Fab 25.10C


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Neutralizing Antibodies against Lassa Virus Lineage I.

Buck, T.K.Enriquez, A.S.Schendel, S.L.Zandonatti, M.A.Harkins, S.S.Li, H.Moon-Walker, A.Robinson, J.E.Branco, L.M.Garry, R.F.Saphire, E.O.Hastie, K.M.

(2022) mBio 13: e0127822-e0127822

  • DOI: https://doi.org/10.1128/mbio.01278-22
  • Primary Citation of Related Structures:  
    7UDS, 7UL7

  • PubMed Abstract: 

    Lassa virus (LASV) is the causative agent of the deadly Lassa fever (LF). Seven distinct LASV lineages circulate through western Africa, among which lineage I (LI), the first to be identified, is particularly resistant to antibody neutralization. Lineage I LASV evades neutralization by half of known antibodies in the GPC-A antibody competition group and all but one of the antibodies in the GPC-B competition group. Here, we solve two cryo-electron microscopy (cryo-EM) structures of LI GP in complex with a GPC-A and a GPC-B antibody. We used complementary structural and biochemical techniques to identify single-amino-acid substitutions in LI that are responsible for immune evasion by each antibody group. Further, we show that LI infection is more dependent on the endosomal receptor lysosome-associated membrane protein 1 (LAMP1) for viral entry relative to LIV. In the absence of LAMP1, LI requires a more acidic fusion pH to initiate membrane fusion with the host cell relative to LIV. IMPORTANCE No vaccine or therapeutics are approved to prevent LASV infection or treat LF. All vaccine platforms currently under development present only the LIV GP sequence. However, our data suggest that the high genetic diversity of LASV may be problematic for designing both a broadly reactive immunogen and therapeutic. Here, we examine antibodies that are highly potent against LIV yet are ineffective against LI. By pinpointing LI mutations responsible for this decrease in antibody efficacy, we suggest that future vaccine platforms may need to incorporate specific LI-like mutations in order to generate a broadly neutralizing antibody response against all LASV lineages.


  • Organizational Affiliation

    La Jolla Institute for Immunology, La Jolla, California, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
25.10C Fab Heavy ChainA [auth D],
B [auth F],
D [auth H]
226Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
25.10C Fab Light ChainC [auth L],
E [auth G],
F [auth E]
209Homo sapiensMutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Glycoprotein G1G [auth A],
H [auth C],
I [auth B]
258Mammarenavirus lassaenseMutation(s): 3 
Gene Names: GPC
UniProt
Find proteins for Q9IMJ0 (Mammarenavirus lassaense)
Explore Q9IMJ0 
Go to UniProtKB:  Q9IMJ0
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UniProt GroupQ9IMJ0
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Glycoprotein G2J [auth a],
K [auth c],
L [auth b]
206Mammarenavirus lassaenseMutation(s): 2 
Gene Names: GPC
UniProt
Find proteins for Q9IMJ0 (Mammarenavirus lassaense)
Explore Q9IMJ0 
Go to UniProtKB:  Q9IMJ0
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UniProt GroupQ9IMJ0
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseM [auth I],
R [auth O],
W [auth T]
5N/AN-Glycosylation
Glycosylation Resources
GlyTouCan:  G22768VO
GlyCosmos:  G22768VO
GlyGen:  G22768VO
Entity ID: 6
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
N [auth J],
P [auth M],
Q [auth N],
S [auth P],
U [auth R],
N [auth J],
P [auth M],
Q [auth N],
S [auth P],
U [auth R],
V [auth S],
X [auth U],
Z [auth W]
2N/AN-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 7
MoleculeChains Length2D Diagram Glycosylation3D Interactions
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-glucopyranoseO [auth K],
T [auth Q],
Y [auth V]
4N/AN-Glycosylation
Glycosylation Resources
GlyTouCan:  G81315DD
GlyCosmos:  G81315DD
GlyGen:  G81315DD
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 A]
BA [auth A]
CA [auth C]
DA [auth C]
EA [auth B]
AA [auth A],
BA [auth A],
CA [auth C],
DA [auth C],
EA [auth B],
FA [auth B],
GA [auth B],
HA [auth a],
IA [auth c],
JA [auth b]
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 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR21 AI137809
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesU19 AI142790
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI141251

Revision History  (Full details and data files)

  • Version 1.0: 2022-06-15
    Type: Initial release
  • Version 1.1: 2022-07-13
    Changes: Database references
  • Version 1.2: 2022-09-07
    Changes: Database references