4K64

Structure of an avian influenza H5 hemagglutinin from the influenza virus complexed with human receptor analog LSTc


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.604 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

An Airborne Transmissible Avian Influenza H5 Hemagglutinin Seen at the Atomic Level

Zhang, W.Shi, Y.Lu, X.Shu, Y.Qi, J.Gao, G.F.

(2013) Science --: --

  • DOI: 10.1126/science.1236787
  • Primary Citation of Related Structures:  4K62, 4K63, 4K65, 4K66, 4K67

  • PubMed Abstract: 
  • Recent studies have identified several mutations in the hemagglutinin (HA) protein that allow the highly pathogenic avian H5N1 influenza A virus to transmit between mammals by airborne route. Here, we determined the complex structures of wild-type an ...

    Recent studies have identified several mutations in the hemagglutinin (HA) protein that allow the highly pathogenic avian H5N1 influenza A virus to transmit between mammals by airborne route. Here, we determined the complex structures of wild-type and mutant HAs derived from an Indonesia H5N1 virus bound to either avian or human receptor sialic acid analogs. A cis/trans conformational change in the glycosidic linkage of the receptor analog was observed, which explains how the H5N1 virus alters its receptor-binding preference. Furthermore, the mutant HA possessed low affinities for both avian and human receptors. Our findings provide a structural and biophysical basis for the H5N1 adaptation to acquire human, but maintain avian, receptor-binding properties.


    Organizational Affiliation

    CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin
A, C, E, G
321Influenza A virus (A/Indonesia/5/2005(H5N1))Gene Names: HA
Find proteins for A8HWY8 (Influenza A virus (A/Indonesia/5/2005(H5N1)))
Go to UniProtKB:  A8HWY8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin
B, D, F, H
164Influenza A virus (A/Indonesia/5/2005(H5N1))Gene Names: HA
Find proteins for A8HWY8 (Influenza A virus (A/Indonesia/5/2005(H5N1)))
Go to UniProtKB:  A8HWY8
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GAL
Query on GAL

Download SDF File 
Download CCD File 
A, C
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, C, E, G
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
SIA
Query on SIA

Download SDF File 
Download CCD File 
A, C
O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.604 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.221 
  • Space Group: P 3
Unit Cell:
Length (Å)Angle (°)
a = 70.336α = 90.00
b = 70.336β = 90.00
c = 491.793γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
ADSCdata collection
PHASERphasing
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-05-22
    Type: Initial release
  • Version 1.1: 2013-05-29
    Type: Refinement description