Nanotech - Molecular Model-T

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May 13, 2002
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#1
Molecular Model-T
By Alan Hall


WINGING IT. This tiny engine is based on a single molecule of ATPase bonded to a propeller made from protein. It spins at the rate of 3 to 4 revolutions per second.

This crude structure is, in fact, a motor. And like young Henry Ford's first Model-Ts, it may be a harbinger of an equally significant industrial revolution--this time, on the scale of billionths of a meter. Created by biological engineers at Cornell University, it makes a reality out of what seemed a purely theoretical idea just a couple of years ago: building machines on a molecular scale.
By comparison, the miniscule gears and wheels that have been etched from silicon using a process called micromachining are behemoths. But self-propelled devices powered by molecule-size engines could function not just inside the body, but literally inside individual cells. To build this micro powerplant, the researchers, headed by Carlo Montemagno, turned not to silicon, but to nature, and combined the organic with the inorganic.


Living cells, too, have engines, such as those that wave bacterial cilia or transport energy across membranes. The scientists found their molecular stator and rotor in the form of an ubiquitous molecule, the enzyme ATPase. The ATPase molecular motors occur on the membranes of mitochondria, microscopic bodies in the cells of nearly all living organisms, as well as in chloroplasts of plant cells; within these organelles, the enzyme is responsible for converting food to usable energy.

POTENT ENGINE. The ATPase motor (top) is built on the membranes of cellular mitochondria. The force it generates in moving energy in cells places it among the most powerful of any known molecular motors.

The moving part of ATPase is a central protein shaft (or rotor, in electric-motor terms), less than 12 nanometers in diameter, that rotates in response to electrochemical reactions with each of the molecule's three proton channels (comparable to the electromagnets in the stator coil of an electric motor). ATP (adenosine triphosphate) is the fuel for the molecular motor's motion. Energy becomes available when atomic bonds between phosphate atoms are broken during hydrolysis, converting ATP into ADP (adenosine diphosphate). During hydrolysis, the shaft rotates in a counterclockwise direction, whereas it rotates clockwise during ATP synthesis from ADP.

To fashion ATPase into a motor capable of mechanical work, Montemagno, an assistant professor of agricultural and biological engineering, turned to genetic engineering. He produced the ATPase molecules using Escherichia coli bacteria that were altered to include a gene sequence for ATPase from the thermophilic bacterium Bacillus PS3.

He then separated the molecules from the cell membrane and attached them to a metallic substrate using a synthetic peptide composed of histidine and other amino acids. These histidine peptides, like little "legs," tied the molecular motors to the substrates, nanofabricated patterns of gold, copper or nickel--the three standard contact materials in integrated circuits that might one day provide control systems for the motors. Of the three metals, nickel showed the greatest adhesion.

Next, the researchers bonded propeller-like filaments made from polymerized proteins to the top of the motor shaft. With further genetic manipulation, the Cornell engineers expect E. coli to turn out ATPase molecules with tiny propellers built right in--making each a kind of nano-motorboat. The protein "props," ranging from 0.5 to 8 microns long, were made of a material that would fluoresce under certain wavelengths of laser light so their motion could be viewed.

MOTOR MOUNT. The ATPase motor is attached to a nanofabricated nickel substrate by "legs" (green) of a synthetic peptide. This connection may allow engineers to integrate nanoengines with the logic of integrated circuits.

Indeed, observing the motion of anything so tiny requires almost as much technology as it does to create it in the first place. In recent experiments, the Cornell engineers tagged the ATPase molecule's rotor with giant fluorescent microspheres, measuring 1 micron (1 millionth of a meter) in diameter. They could then observe the microsphere's movement using a differential interferometer and a charge-coupled device kinetics camera.

When the scientists switched on their motor--by bathing it in a solution of ATP--the rotor spun for 40 minutes at 3 to 4 revolutions per second, the group reports in the September issue of the journal Nanotechnology.


Still, it won't be any day soon when tiny "smart" devices are swimming through the body, dispensing drugs to kill cancer cells. "We have succeeded in establishing biological and nanofabrication platforms for the production of organic/inorganic hybrid nanoelectromechanical systems (NEMS)," says Montemagno. "But we have a long way to go before it's safe to turn these little machines loose in the human body." Issues such as the impact of waste products, including heat and protons, on the motors' performance and their surrounding environment, must be addressed.

But it's possible that, far sooner, these nanoengines will be pumping fluids, opening and closing valves and providing mechanical drives for a new class of nanomechanical devices. "For a technology that wasn't expected to produce a useful device before the year 2050, I think we've made a pretty good start," says Montemagno.
 
May 13, 2002
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#4
Armored Viruses
By Kate Wong

Scientists have found a knight in shining armor--in the virus kingdom. According to a report published today in the journal Science, close scrutiny of a virus dubbed HK97 revealed for the first time a protein coat structured precisely like medieval chain mail. The discovery could lead to new designs in nanotechnology.


Image:Courtesy William Wikoff/Scripps Institute of Research

Thankfully, this armored virus does not infect humans. Rather it belongs to a class of viruses known as bacteriophages, which only infect bacteria. Because of the virus's extremely small size (its head is thousands of times narrower than a human hair) researchers turned to electron microscopy and x-ray crystallography to examine its exterior. HK97's coat, they found, consists of 72 interlocking rings of protein--formidable protection for the virus's DNA. "Its protein rings are cross-linked in a manner similar to the five-ring Olympic symbol," notes Hiro Tsuruta of Stanford University. "Together the rings form a rigid, spherical cage shaped like a 20-sided soccer ball."

The viral armor may well function similarly to the ensembles of medieval knights, which offered both protection and freedom of movement. "This virus has developed a very clever way of keeping its DNA intact," Tsuruta observes. Nanotechnology investigators may take inspiration from this clever configuration. "People are looking at viruses as containers," remarks Scripps Research Institute biologist John E. Johnson, "and the chain mail structure could provide a novel way to create a container that's very thin yet stable."
 
May 13, 2002
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Seattle
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#7
New DNA Computer Functions sans Fuel
By Sarah Graham

In 2001, scientists at the Weizmann Institute of Science in Israel announced that they had manufactured a computer so small that a single drop of water would hold a trillion of the machines. The devices used DNA and enzymes as their software and hardware and could collectively perform a billion operations a second. Now the same team, led by Ehud Shapiro, has announced a novel model of its biomolecular machine that no longer requires an external energy source and performs 50 times faster than its predecessor did. The Guinness Book of World Records has crowned it the world's smallest biological computing device.
Many designs for minuscule computers aimed at harnessing the massive storage capacity of DNA have been proposed over the years. Earlier schemes have relied on a molecule known as ATP, which is a common source of energy for cellular reactions, as a fuel source. But in the new set up, a DNA molecule provides both the initial data and sufficient energy to complete the computation. Shapiro and his colleagues describe their DNA computer in a report published online this week by the Proceedings of the National Academy of Sciences.



Both models of the molecular computer are so-called automatons. Given an input string comprised of two different states, an automaton uses predetermined rules to arrive at an output value that answers a particular question. For example, it can determine whether a string containing only a's and b's has an even number of a's, or if all the b's are preceded by a's. In the latest design, two DNA molecules bond together to perform the computational steps. An enzyme known as FokI acts as the computer's hardware by cleaving a piece of the input molecule and releasing the energy stored in the bonds. This heat energy then powers the next computation. [The illustration above shows an input DNA molecule (green/blue), software DNA molecules (red/purple) and FokI (colored ribbons).] The authors report that a microliter of solution could hold three trillion computers, which together would perform 66 billion operations a second.