The structure of the most important protein complexes of the H5N1 virus, the most common strain of bird flu has been identified by scientists at the U.S. Department of Energy's (DOE) Argonne National Laboratory in collaboration with scientists from China and Singapore.
This may be considered a key discovery towards the cure for the most common strain of avian influenza, or "bird flu," the potential pandemic that has claimed more than 200 lives and infected nearly 400 people in 14 countries since it was identified in 2003.
It is known that all viruses, including H5N1, contain only a small number of proteins that govern all of the viruses' functions. In H5N1, perhaps the most important of these proteins is RNA polymerase, which contains the instructions that allows the virus to copy itself along with all of its genetic material.
"When we mapped out the PA subunit, it looked very much like the head of a dragon. One domain looked like the dragon's brains, and the other looked like its mouth," said Argonne biophysicist Andrzej Joachimiak.
All three of the subunits of the protein assemble themselves in a particular configuration during RNA replication - the phase during which the virus "reproduces". To facilitate this congregation, the researchers determined the end of the PB1 subunit has to insert itself and bind to the "dragon's mouth" part of the PA subunit.
Joachimiak said that this bizarre relationship between the two subunits could instigate a number of different therapies or vaccines for H5N1 that rely on muzzling the "dragon's" jaws with another molecule or chemical compound that would block the PB1 subunit's access to the PA site.
"If we can put a bit in the dragon's mouth, we can slow or even potentially someday stop the spread of avian flu. Since we are talking about a relatively small protein surface area, finding a way to inhibit RNA replication in H5N1 seems very feasible," he said.
And now Joachimiak hopes to more precisely identify the types of compounds that could inhibit RNA replication in H5N1 by looking at the atomic-level grooves and pockets within the PA "mouth" region.
He said that scientists must gain a more thorough understanding of the geometry of that small region in order to effectively synthesize drugs that could prevent the further spread of bird flu.