4FQK

Influenza B/Brisbane/60/2008 hemagglutinin Fab CR8059 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.65 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.306 
  • R-Value Observed: 0.308 

Starting Models: experimental
View more details

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 2.1 of the entry. See complete history


Literature

Highly conserved protective epitopes on influenza B viruses.

Dreyfus, C.Laursen, N.S.Kwaks, T.Zuijdgeest, D.Khayat, R.Ekiert, D.C.Lee, J.H.Metlagel, Z.Bujny, M.V.Jongeneelen, M.van der Vlugt, R.Lamrani, M.Korse, H.J.Geelen, E.Sahin, O.Sieuwerts, M.Brakenhoff, J.P.Vogels, R.Li, O.T.Poon, L.L.Peiris, M.Koudstaal, W.Ward, A.B.Wilson, I.A.Goudsmit, J.Friesen, R.H.

(2012) Science 337: 1343-1348

  • DOI: https://doi.org/10.1126/science.1222908
  • Primary Citation of Related Structures:  
    4FQH, 4FQI, 4FQJ, 4FQK, 4FQL, 4FQM, 4FQV, 4FQY

  • PubMed Abstract: 

    Identification of broadly neutralizing antibodies against influenza A viruses has raised hopes for the development of monoclonal antibody-based immunotherapy and "universal" vaccines for influenza. However, a substantial part of the annual flu burden is caused by two cocirculating, antigenically distinct lineages of influenza B viruses. Here, we report human monoclonal antibodies, CR8033, CR8071, and CR9114, that protect mice against lethal challenge from both lineages. Antibodies CR8033 and CR8071 recognize distinct conserved epitopes in the head region of the influenza B hemagglutinin (HA), whereas CR9114 binds a conserved epitope in the HA stem and protects against lethal challenge with influenza A and B viruses. These antibodies may inform on development of monoclonal antibody-based treatments and a universal flu vaccine for all influenza A and B viruses.


  • Organizational Affiliation

    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hemagglutinin HA1
A, C
347Influenza B virus (B/Brisbane/60/2008)Mutation(s): 0 
Gene Names: HA
UniProt
Find proteins for C0LT38 (Influenza B virus)
Explore C0LT38 
Go to UniProtKB:  C0LT38
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC0LT38
Glycosylation
Glycosylation Sites: 5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Hemagglutinin HA2
B, D
179Influenza B virus (B/Brisbane/60/2008)Mutation(s): 0 
Gene Names: HA
UniProt
Find proteins for C0LT38 (Influenza B virus)
Explore C0LT38 
Go to UniProtKB:  C0LT38
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC0LT38
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Antibody CR8059 Heavy ChainE,
G [auth H]
234Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Antibody CR8059 Light ChainF,
H [auth L]
216Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
I [auth G],
J [auth I],
K [auth J],
N,
O,
I [auth G],
J [auth I],
K [auth J],
N,
O,
P
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 6
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseL [auth K],
M
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.65 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.306 
  • R-Value Observed: 0.308 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 189.2α = 90
b = 189.2β = 90
c = 319.31γ = 120
Software Package:
Software NamePurpose
Blu-Icedata collection
PHASERphasing
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-08-22
    Type: Initial release
  • Version 1.1: 2012-10-03
    Changes: Database references
  • Version 1.2: 2017-11-15
    Changes: Refinement description
  • Version 1.3: 2018-01-31
    Changes: Database references
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
  • Version 2.1: 2023-09-13
    Changes: Data collection, Database references, Refinement description, Structure summary