3FKU

Crystal structure of influenza hemagglutinin (H5) in complex with a broadly neutralizing antibody F10


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.286 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural and functional bases for broad-spectrum neutralization of avian and human influenza A viruses.

Sui, J.Hwang, W.C.Perez, S.Wei, G.Aird, D.Chen, L.M.Santelli, E.Stec, B.Cadwell, G.Ali, M.Wan, H.Murakami, A.Yammanuru, A.Han, T.Cox, N.J.Bankston, L.A.Donis, R.O.Liddington, R.C.Marasco, W.A.

(2009) Nat.Struct.Mol.Biol. 16: 265-273

  • DOI: 10.1038/nsmb.1566

  • PubMed Abstract: 
  • Influenza virus remains a serious health threat, owing to its ability to evade immune surveillance through rapid genetic drift and reassortment. Here we used a human non-immune antibody phage-display library and the H5 hemagglutinin ectodomain to sel ...

    Influenza virus remains a serious health threat, owing to its ability to evade immune surveillance through rapid genetic drift and reassortment. Here we used a human non-immune antibody phage-display library and the H5 hemagglutinin ectodomain to select ten neutralizing antibodies (nAbs) that were effective against all group 1 influenza viruses tested, including H5N1 'bird flu' and the H1N1 'Spanish flu'. The crystal structure of one such nAb bound to H5 shows that it blocks infection by inserting its heavy chain into a conserved pocket in the stem region, thus preventing membrane fusion. Nine of the nAbs employ the germline gene VH1-69, and all seem to use the same neutralizing mechanism. Our data further suggest that this region is recalcitrant to neutralization escape and that nAb-based immunotherapy is a promising strategy for broad-spectrum protection against seasonal and pandemic influenza viruses.


    Organizational Affiliation

    Department of Cancer Immunology & AIDS, Dana-Farber Cancer Institute, Harvard Medical School, 44 Binney Street JFB 826, Boston, Massachusetts 02115, USA. jianhua_sui@dfci.harvard.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin
A, C, E, G, I, K
338Influenza A virus (strain A/Hong Kong/212/2003 H5N1 genotype Z+)Mutation(s): 0 
Gene Names: HA
Find proteins for Q6J8F6 (Influenza A virus (strain A/Hong Kong/212/2003 H5N1 genotype Z+))
Go to UniProtKB:  Q6J8F6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin
B, D, F, H, J, L
182Influenza A virus (strain A/Hong Kong/212/2003 H5N1 genotype Z+)Mutation(s): 0 
Gene Names: HA
Find proteins for Q6J8F6 (Influenza A virus (strain A/Hong Kong/212/2003 H5N1 genotype Z+))
Go to UniProtKB:  Q6J8F6
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Neutralizing antibody F10
X, Y, Z, S, T, U
280N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BMA
Query on BMA

Download SDF File 
Download CCD File 
A, C, E, G, I, K
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, C, E, G, I, K
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.286 
  • R-Value Work: 0.232 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 205.300α = 90.00
b = 118.500β = 99.60
c = 338.900γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
XSCALEdata scaling
XDSdata reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-02-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance