5A3I

Crystal Structure of a Complex formed between FLD194 Fab and Transmissible Mutant H5 Haemagglutinin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.89 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.244 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structures of Complexes Formed by H5 Influenza Hemagglutinin with a Potent Broadly Neutralizing Human Monoclonal Antibody.

Xiong, X.Corti, D.Liu, J.Pinna, D.Foglierini, M.Calder, L.J.Martin, S.R.Lin, Y.P.Walker, P.A.Collins, P.J.Monne, I.Suguitan, A.L.J.Santos, C.Temperton, N.J.Subbarao, K.Lanzavecchia, A.Gamblin, S.J.Skehel, J.J.

(2015) Proc.Natl.Acad.Sci.USA 112: 9430

  • DOI: 10.1073/pnas.1510816112

  • PubMed Abstract: 
  • H5N1 avian influenza viruses remain a threat to public health mainly because they can cause severe infections in humans. These viruses are widespread in birds, and they vary in antigenicity forming three major clades and numerous antigenic variants. ...

    H5N1 avian influenza viruses remain a threat to public health mainly because they can cause severe infections in humans. These viruses are widespread in birds, and they vary in antigenicity forming three major clades and numerous antigenic variants. The most important features of the human monoclonal antibody FLD194 studied here are its broad specificity for all major clades of H5 influenza HAs, its high affinity, and its ability to block virus infection, in vitro and in vivo. As a consequence, this antibody may be suitable for anti-H5 therapy and as a component of stockpiles, together with other antiviral agents, for health authorities to use if an appropriate vaccine was not available. Our mutation and structural analyses indicate that the antibody recognizes a relatively conserved site near the membrane distal tip of HA, near to, but distinct from, the receptor-binding site. Our analyses also suggest that the mechanism of infectivity neutralization involves prevention of receptor recognition as a result of steric hindrance by the Fc part of the antibody. Structural analyses by EM indicate that three Fab fragments are bound to each HA trimer. The structure revealed by X-ray crystallography is of an HA monomer bound by one Fab. The monomer has some similarities to HA in the fusion pH conformation, and the monomer's formation, which results from the presence of isopropanol in the crystallization solvent, contributes to considerations of the process of change in conformation required for membrane fusion.


    Organizational Affiliation

    Mill Hill Laboratory, The Francis Crick Institute, London NW7 1AA, United Kingdom;




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HEMAGGLUTININ
A, E
328Influenza A virus (A/Viet Nam/1203/2004(H5N1))Gene Names: HA
Find proteins for Q6DQ33 (Influenza A virus (A/Viet Nam/1203/2004(H5N1)))
Go to UniProtKB:  Q6DQ33
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HEMAGGLUTININ
B
166Influenza A virus (A/Viet Nam/1203/2004(H5N1))N/A
Find proteins for A8UDR1 (Influenza A virus (A/Viet Nam/1203/2004(H5N1)))
Go to UniProtKB:  A8UDR1
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ANTI-HAEMAGGLUTININ HA1 FAB HEAVY CHAIN
C, G
230N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
ANTI-HAEMAGGLUTININ HA1 FAB LIGHT CHAIN
D, H
219N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
HEMAGGLUTININ
F
166Influenza A virus (A/Viet Nam/1203/2004(H5N1))N/A
Find proteins for A8UDR1 (Influenza A virus (A/Viet Nam/1203/2004(H5N1)))
Go to UniProtKB:  A8UDR1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.89 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.244 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 86.750α = 78.67
b = 87.700β = 84.66
c = 100.900γ = 73.91
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
REFMACrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2015-07-22
    Type: Initial release
  • Version 1.1: 2015-08-12
    Type: Database references
  • Version 1.2: 2015-09-09
    Type: Source and taxonomy