6CNV

INFLUENZA B/BRISBANE HEMAGGLUTININ FAB CR9115 SD84H COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.242 

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Ligand Structure Quality Assessment 


This is version 2.1 of the entry. See complete history


Literature

Universal protection against influenza infection by a multidomain antibody to influenza hemagglutinin.

Laursen, N.S.Friesen, R.H.E.Zhu, X.Jongeneelen, M.Blokland, S.Vermond, J.van Eijgen, A.Tang, C.van Diepen, H.Obmolova, G.van der Neut Kolfschoten, M.Zuijdgeest, D.Straetemans, R.Hoffman, R.M.B.Nieusma, T.Pallesen, J.Turner, H.L.Bernard, S.M.Ward, A.B.Luo, J.Poon, L.L.M.Tretiakova, A.P.Wilson, J.M.Limberis, M.P.Vogels, R.Brandenburg, B.Kolkman, J.A.Wilson, I.A.

(2018) Science 362: 598-602

  • DOI: https://doi.org/10.1126/science.aaq0620
  • Primary Citation of Related Structures:  
    6CK8, 6CNV, 6CNW, 6FYS, 6FYT, 6FYU, 6FYW

  • PubMed Abstract: 

    Broadly neutralizing antibodies against highly variable pathogens have stimulated the design of vaccines and therapeutics. We report the use of diverse camelid single-domain antibodies to influenza virus hemagglutinin to generate multidomain antibodies with impressive breadth and potency. Multidomain antibody MD3606 protects mice against influenza A and B infection when administered intravenously or expressed locally from a recombinant adeno-associated virus vector. Crystal and single-particle electron microscopy structures of these antibodies with hemagglutinins from influenza A and B viruses reveal binding to highly conserved epitopes. Collectively, our findings demonstrate that multidomain antibodies targeting multiple epitopes exhibit enhanced virus cross-reactivity and potency. In combination with adeno-associated virus-mediated gene delivery, they may provide an effective strategy to prevent infection with influenza virus and other highly variable pathogens.


  • Organizational Affiliation

    Department of Integrative Structural and Computational Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hemagglutinin347Influenza B virus (B/Townsville/202/2008)Mutation(s): 0 
Gene Names: HA
UniProt
Find proteins for U3RVK6 (Influenza B virus)
Explore U3RVK6 
Go to UniProtKB:  U3RVK6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupU3RVK6
Glycosylation
Glycosylation Sites: 5
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoprotein220Influenza B virus (B/Townsville/202/2008)Human immunodeficiency virus 1
This entity is chimeric
Mutation(s): 0 
UniProt
Find proteins for C0LT38 (Influenza B virus)
Explore C0LT38 
Go to UniProtKB:  C0LT38
Find proteins for P10104 (Enterobacteria phage T4)
Explore P10104 
Go to UniProtKB:  P10104
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP10104C0LT38
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
SD84h116synthetic constructMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
CR9114 Light chainD [auth L]216Homo sapiensMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
CR9114 Fab heavy chainE [auth H]230Homo sapiensMutation(s): 0 
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 6
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseF [auth D],
G [auth E],
H [auth F],
I [auth G]
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
J [auth A]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.242 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 190.78α = 90
b = 190.78β = 90
c = 190.78γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-11-14
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary
  • Version 2.1: 2024-10-23
    Changes: Data collection, Database references, Structure summary