Nobel Prize in chemistry honors 3 scientists who used AI to design proteins — life’s building blocks

Combination image showing this year's winners of the Nobel Prize in chemistry: University of Washington computational biologist professor David Baker (left) at his lab in Seattle, Washington, and Demis Hassabis and John M. Jumper at the offices of Google DeepMind UK in London, Britain, on October 9, 2024. (REUTERS/AFP photos)
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Updated 10 October 2024
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Nobel Prize in chemistry honors 3 scientists who used AI to design proteins — life’s building blocks

  • David Baker created a computer program called Rosetta that helped analyze information about existing proteins in comprehensive databases to build new proteins that don’t exist in nature
  • Demis Hassabis and John Jumper created an artificial intelligence model that has predicted the structure of virtually all the 200 million proteins that researchers have ever identified

LONDON: Three scientists who discovered powerful techniques to decode and even design novel proteins — the building blocks of life — were awarded the Nobel Prize in chemistry Wednesday. Their work used advanced technologies, including artificial intelligence, and holds the potential to transform how new drugs and other materials are made.
The prize was awarded to David Baker, a biochemist at the University of Washington in Seattle, and to Demis Hassabis and John Jumper, computer scientists at Google DeepMind, a British-American artificial intelligence research laboratory based in London.
Heiner Linke, chair of the Nobel Committee for Chemistry, said the award honored research that unraveled “a grand challenge in chemistry, and in particular in biochemistry, for decades.”
“It’s that breakthrough that gets awarded today,” he said.
What is the 2024 Nobel Prize in Chemistry for?
Proteins are complex molecules with thousands of atoms that twist, turn, loop and spiral in a countless array of shapes that determine their biological function. For decades, scientists have dreamed of being able to efficiently design and build new proteins.
Baker, 62, whose work has received funding from the National Institutes of Health since the 1990s, created a computer program called Rosetta that helped analyze information about existing proteins in comprehensive databases to build new proteins that don’t exist in nature.
“It seems that you can almost construct any type of protein now with this technology,” said Johan Åqvist of the Nobel committee.
Hassabis, 48, and Jumper, 39, created an artificial intelligence model that has predicted the structure of virtually all the 200 million proteins that researchers have ever identified.
The duo “managed to crack the code. With skillful use of artificial intelligence, they made it possible to predict the complex structure of essentially any known protein in nature,” Linke said.

Why does this work matter?
The ability to custom design new proteins — and better understand existing proteins — could enable researchers to create new kinds of medicines and vaccines.
It could also allow scientists to design new enzymes to break down plastics or other waste materials that would neutralize pollution, Baker told a news conference, or even come up with entirely new material for semi conductors.
“I think there’s fantastic prospects for making better medicines — medicines that are smarter, that only work in the right time and place in the body,” Baker told The Associated Press.
One example is a potential nasal spray that could slow or stop the rapid spread of specific viruses, such as COVID-19, he said. Another is a medicine to disrupt the cascade of symptoms known as cytokine storm.
“That was always the holy grail. If you could figure out how protein sequences folded into their particular structures, then it might be possible to design protein sequences to fold into previously never seen structures that might be useful for us,” said Jon Lorsch, a director at the NIH.
How did the winners react?
Baker told the AP he found out he won the Nobel during the early hours of the morning alongside his wife, who immediately started screaming.
“So it was a little deafening, too,” he said.




Computational biologist professor David Baker speaks to coworkers at the University of Washington in Seattle after receiving the 2024 Nobel Prize in chemistry on October 09, 2024. (Getty Images/AFP)

Hassabis said he was just having a “normal morning” at home when he eventually got the call.
The Nobel committee didn’t initially have his number and first managed to get hold of his wife, but she hung up on them a few times, he told an online news briefing.
“They kept persisting and then I think she realized it was a Swedish number and then they asked for my number,” he said.
“It’s so incredible. It’s so unreal at this moment,” said Jumper, a researcher and director at Google DeepMind. “And it’s wonderful.”
What was the role of AI?
One of Britain’s leading tech figures, Hassabis co-founded the AI research lab DeepMind in 2010, which was acquired by Google in 2014. Among its past breakthroughs was developing an AI system that mastered the Chinese game Go and defeated the game’s human world champion.
In the past researchers labored for months or years to decode the structure of a single complex protein.
But the AI model created by the DeepMind researchers, called AlphaFold, “can determine the structure of a protein pretty accurately within a few seconds or minutes,” Hassabis told the AP in an interview, adding that this saves researchers “years of potentially painstaking experimental work.”
The two research groups learned from each other’s work.




Johan Aqvist, member of the Nobel Committee for Chemistry, Hans Ellegren, permanent secretary and Heiner Linke, committee chairman award this year's Nobel Prize in Chemistry to David Baker, Demis Hassabis, and John Jumper at the Royal Swedish Academy of Sciences, in Stockholm, Sweden, on Oct. 9, 2024. (TT News Agency via AP)

Baker said Hassabis and Jumper’s artificial intelligence work gave his team a huge boost.
“The breakthroughs made by Demis and John on protein structure prediction really highlighted to us the power that AI could have,” said Baker. “And that led us to apply these AI methods to protein design.”
Science has sped up, said Jumper. “It is a key demonstration that AI will make science faster “
It’s the second Nobel prize this year awarded to someone with links to artificial intelligence research at Google.
Nobel physics prize winner Geoffrey Hinton, 76, often called the “godfather of AI,” also worked at the California-based tech company until quitting so he could speak more openly about the potential downsides of AI.
“I’m hoping AI will lead to tremendous benefits,” Hinton told a news conference Tuesday. “I’m convinced that it will do that in health care.”
“My worry is that it may also lead to bad things. And in particular, when we get things more intelligent than ourselves, no one really knows whether we’re going to be able to control them.”
More about the Nobels
Wednesday’s chemistry prize winners represent a younger generation taking forward the work of the AI pioneers honored for physics, said Michael Kearns, a computer scientist at the University of Pennsylvania.
They are making AI models “scalable and practical and applying it to very important scientific problems.”
Baker gets half of the 11 million Swedish Kronor ($1 million) prize money, while Hassabis and Jumper share the other half.
The Nobel announcements opened Monday with medical researchers Victor Ambros and Gary Ruvkun winning the medicine prize. Hinton and fellow AI pioneer John Hopfield, 91, won the physics prize.
The awards continue with the literature prize Thursday, the Nobel Peace Prize Friday and the economics award on Oct. 14.
The prize money comes from a bequest by the award’s creator, Swedish inventor Alfred Nobel. The laureates are invited to receive their awards at ceremonies on Dec. 10, the anniversary of Nobel’s death.


No regrets: Merkel looks back at refugee crisis, Russia ties

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No regrets: Merkel looks back at refugee crisis, Russia ties

  • Merkel, who speaks Russian, also defends her engagement over the years with Putin, who speaks German — despite her misgivings about the former KGB agent who once allowed a labrador into a meeting between them, apparently playing on her fear of dogs

BERLIN: Germany’s former chancellor Angela Merkel gives a spirited defense of her 16 years at the helm of Europe’s top economy in her memoir “Freedom,” released in 30 languages on Tuesday.
Since she stepped down in 2021, Merkel has been accused of having been too soft on Russia, leaving Germany dangerously reliant on cheap Russian gas and sparking turmoil and the rise of the far right with her open-door migrant policy.
Her autobiography is released as wars rage in Ukraine and the Middle East, Donald Trump is headed back to the White House and Germany faces snap elections after its ruling coalition collapsed this month.
Merkel, 70, remembered for her calm and unflappable leadership style, rejects blame for any of the current turmoil, in the 736-page autobiography co-written with longtime adviser Beate Baumann.
After years out of the public eye, she has given multiple media interviews, reflecting on her childhood under East German communism and tense encounters with Russian President Vladimir Putin and Trump, who she felt “was captivated by politicians with autocratic and dictatorial tendencies.”
In the full memoir, she gives further insights into her thoughts and actions — including during the 2015 mass refugee influx, which came to define the final years of her leadership.

Critics have charged that Merkel’s refusal to push back large numbers of asylum-seekers at the Austrian border led to more than one million arrivals and fueled the rise of the far-right Alternative for Germany (AfD).
Merkel, who at the time posed for a selfie with one Syrian refugee, says she “still does not understand ... how anyone could have assumed that a friendly face in a photo would be enough to encourage entire legions to flee their homeland.”
While affirming that “Europe must always protect its external borders,” she stresses that “prosperity and the rule of law will always make Germany and Europe ... places where people want to go.”
In addition, she writes in the French edition of the book, fast-aging Germany’s “lack of manpower makes legal migration essential.”
Her bold declaration at the time — “wir schaffen das” in German or “we can do this” — was a “banal” statement with the message that “where there are obstacles, we must work to overcome them,” she argues.
And on the AfD, she cautions Germany’s mainstream parties against adopting their rhetoric “without proposing concrete solutions to existing problems,” warning that with such an approach mainstream movements “will fail.”

Merkel, who speaks Russian, also defends her engagement over the years with Putin, who speaks German — despite her misgivings about the former KGB agent who once allowed a labrador into a meeting between them, apparently playing on her fear of dogs.
She describes the Russian leader as “a man perpetually on the lookout, afraid of being mistreated and always ready to strike, including by playing at exercising his power with a dog and making others wait.”
Nevertheless, she says that “despite all the difficulties” she was right “not to let contacts with Russia be broken off ... and to also preserve ties through trade relations.”
The reality is, she argues, that “Russia is, with the United States, one of the two main nuclear powers in the world.”
She also defends her opposition to Ukraine joining NATO at a 2008 Bucharest summit, considering it illusory to think that candidate status would have protected it from Putin’s aggression.
After the summit, she remembers flying home with the feeling that “we in NATO had no common strategy for dealing with Russia.”

Russia’s full-scale attack on Ukraine in February 2022, and the sabotage of the Nord Stream pipelines, cut Germany off from cheap Russian gas, with the taps’ closure a key driver of its ongoing economic malaise.
But Merkel rejects criticism for having allowed the Baltic Sea pipelines in the first place, pointing out that Nord Stream 1 was signed off on by her predecessor, the Social Democrat Gerhard Schroeder, long a friend of Putin.
On Nord Stream 2, which she approved after Russia’s 2014 annexation of Crimea, she argues that at the time it would have been “difficult to get companies and gas users in Germany and in many EU member states to accept” having to import more expensive liquefied natural gas from other sources.
Merkel says the gas was needed as a transitional energy source as Germany was pursuing both a switch to renewable energy and the phase-out of nuclear power following Japan’s 2011 Fukushima disaster.
On nuclear power itself, she argues that “we do not need it to meet our climate goals” and that the German phase-out can “inspire courage in other countries” to follow suit.

 


Russia security chief meets Taliban officials in Kabul

Updated 26 November 2024
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Russia security chief meets Taliban officials in Kabul

  • Shoigu, the secretary of Russia’s Security Council, met an Afghan cohort in Kabul headed by Deputy Prime Minister for Economic Affairs Abdul Ghani Baradar

KABUL: Top Russian security official Sergei Shoigu visited Afghan government officials on Monday, assuring them Moscow will soon remove the Taliban from its list of banned organizations, Kabul said.
Since the Taliban surged back to power in 2021 visits by foreign officials have been infrequent because no nation has yet formally recognized the government of the former insurgent group.
Taliban government curbs on women have made them pariahs in many Western nations but Kabul is making increasing diplomatic overtures to its regional neighbors, emphasising economic and security cooperation.
Shoigu, the secretary of Russia’s Security Council, met an Afghan cohort in Kabul headed by Deputy Prime Minister for Economic Affairs Abdul Ghani Baradar.
He “expressed Russia’s interest in increasing the level of bilateral cooperation with Afghanistan,” Baradar’s office said in a statement released on social media site X.
“He also announced that, to expand political and economic relations between the two countries, the Islamic Emirate’s name would soon be removed from Russia’s blacklist.”
The Islamic Emirate is the name the Taliban government uses to refer to itself.
Russian news agencies quoted Shoigu as saying he wanted “constructive” ties with Kabul, without saying if he had floated Moscow removing the Taliban from its list of banned groups.
“I confirm the readiness to build a constructive political dialogue between our countries, including in order to give momentum to the process of the internal Afghan settlement,” Shoigu said, according to the RIA Novosti news agency.
He also said Russian companies plan to take part in projects in Afghanistan on extracting natural resources.
Analysts say Moscow may be eying cooperation with Kabul to counter the threat from Islamic State Khorasan (IS-K) — the Afghan-based branch of the Sunni militant group.
In March, more than 140 people were killed when IS-K gunmen attacked a Moscow concert hall.
Taliban authorities have repeatedly said security is their top domestic priority and have pledged militants staging foreign attacks will be ousted from Afghanistan.
“The Taliban certainly are our allies in the fight against terrorism,” Russia’s ambassador to Afghanistan, Dmitry Zhirnov, said in July.
“They are working to eradicate terrorist cells.”


Republican senator blocks promotion of US Army general associated with Afghanistan withdrawal

Updated 26 November 2024
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Republican senator blocks promotion of US Army general associated with Afghanistan withdrawal

  • President-elect Donald Trump and his allies have decried the United States’ military withdrawal from Afghanistan and vowed to go after those responsible for it

WASHINGTON: A Republican senator has blocked the promotion of US Army Lt. Gen. Christopher Donahue, who commanded the military’s 82nd Airborne Division during the US withdrawal from Afghanistan and was the last American soldier to leave the country in 2021.
A US official, speaking on condition of anonymity, said the hold had been placed by Senator Markwayne Mullin, who did not respond to a request for comment on why he blocked the promotion.
The Pentagon on Monday said it was aware of the hold on Donahue, who had been nominated for a fourth star by President Joe Biden to lead the US Army in Europe and Africa.
“We are aware that there is a hold on Lt. Gen. Donahue,” Pentagon spokesperson Sabrina Singh told reporters.
President-elect Donald Trump and his allies have decried the United States’ military withdrawal from Afghanistan and vowed to go after those responsible for it. In August, Trump said he would ask for the resignation of every senior official “who touched the Afghanistan calamity.”
“You have to fire people when they do a bad job. We never fire anybody,” Trump has said.
Reuters has reported that Trump’s transition team is drawing up a list of military officers to be fired, in what would be an unprecedented shakeup at the Pentagon.
While the image of Donahue, carrying his rifle down by his side as he boarded the final C-17 transport flight out of Afghanistan on in August 2021, has become synonymous with the chaotic withdrawal, he is seen in the military as one of the most talented Army leaders.
“The finest officer I ever served with, Chris Donahue is a generational leader who is now being held up for political purposes. At the tip of the spear defending this country for over three decades, he is now a political pawn,” Tony Thomas, the former head of US Special Operations Command, posted on X.
Under Senate rules, one lawmaker can hold up nominations even if the other 99 all want them to move quickly.


US prosecutors seek to drop federal criminal cases against Trump

Updated 26 November 2024
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US prosecutors seek to drop federal criminal cases against Trump

  • Policy against prosecuting sitting presidents cited
  • Courts must approve the two dismissal requests

WASHINGTON: US prosecutors moved on Monday to drop the two federal criminal cases against Donald Trump involving his efforts to overturn his 2020 election defeat and his handling of classified documents, citing Justice Department policy against prosecuting a sitting president.
The steps by prosecutors working with Special Counsel Jack Smith in the two cases represent a big legal victory for the Republican president-elect, who won the Nov. 5 US election and is set to return to office on Jan. 20.
The Justice Department policy that the prosecutors cited dates back to the 1970s. It holds that a criminal prosecution of a sitting president would violate the US Constitution by undermining the ability of the country’s chief executive to function. Courts will still have to approve both requests from prosecutors.
The prosecutors in a filing in the election subversion case said the department’s policy requires the case to be dismissed before Trump returns to the White House.
“This outcome is not based on the merits or strength of the case against the defendant,” prosecutors wrote in the filing.
Smith’s office similarly moved to end its attempt to revive the case accusing Trump of illegally retaining classified documents when he left office in 2021 after his first term as president. But the prosecutors signaled they will still ask a federal appeals court to bring back the case against two Trump associates who had been accused of obstructing that investigation.
Trump spokesman Steven Cheung hailed what he called “a major victory for the rule of law.”
Trump had faced criminal charges in four cases — the two brought by Smith and two in state courts in New York and Georgia. He was convicted in the New York case while the Georgia case is in limbo.
In a post on social media, Trump railed on Monday against the legal cases as a “low point in the History of our Country.” The moves by Smith, who was appointed in 2022 by US Attorney General Merrick Garland, represents a remarkable shift from the special prosecutor who obtained indictments against Trump in two separate cases accusing him of crimes that threatened US election integrity and national security. Prosecutors acknowledged that the election of a president who faced ongoing criminal cases created an unprecedented predicament for the Justice Department.
It shows how Trump’s election victory over Democratic Vice President Kamala Harris was not just a political triumph, but also a legal one. Trump pleaded not guilty in August 2023 to four federal charges accusing him of conspiring to obstruct the collection and certification of votes following his 2020 loss to Democrat Joe Biden.
Trump, who as president will again oversee the Justice Department, was expected to order an end to the federal 2020 election case and to Smith’s appeal in the documents case.
Florida-based Judge Aileen Cannon, who Trump appointed to the federal bench, had dismissed the classified documents case in July, ruling that Smith was improperly appointed to his role as special counsel.
Smith’s office had been appealing that ruling and indicated on Monday that the appeal would continue as it relates to Trump personal aide Walt Nauta and Carlos De Oliveira, a manager at his Mar-a-Lago resort, who had been previously charged alongside Trump in the case. Both Nauta and De Oliveria have pleaded not guilty, as did Trump.
In the 2020 election case, Trump’s lawyers had previously said they would seek to dismiss the charges based on a US Supreme Court ruling in July that former presidents have broad immunity from prosecution over official actions taken while in the White House. Smith attempted to salvage the case following that ruling, dropping some allegations but arguing that the rest were not covered by presidential immunity and could proceed to trial.
Judge Tanya Chutkan had been due to decide whether the immunity decision required other portions of the case to be thrown out. A trial date originally set for March 2024 had not been rescheduled.
The case was brought following an investigation led by Smith into Trump’s attempts to retain power following his 2020 election defeat, culminating in the Jan. 6, 2021, attack on the US Capitol by a mob of his supporters following his inflammatory speech near the White House.
Trump denied wrongdoing and argued that the US legal system had been turned against him to damage his presidential campaign. He vowed during the campaign that he would fire Smith if he returned to the presidency.
Trump in May became the first former president to be convicted of a crime when a jury in New York found him guilty of felony charges relating to hush money paid to a porn star before the 2016 election. His sentencing in that case has been indefinitely postponed.
The criminal case against Trump in Georgia state court involving the 2020 election is stalled.


Pontiff slams ‘invader arrogance’ in ‘Palestine’ and Ukraine

Pope Francis leads mass for the World Youth Day at St Peter's basilica in The Vatican, on November 24, 2024. (AFP)
Updated 25 November 2024
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Pontiff slams ‘invader arrogance’ in ‘Palestine’ and Ukraine

CATICAN CITY: Pope Francis on Monday railed against the conflicts in Ukraine and the Palestinian territories, where he said “the arrogance of the invader prevails over dialogue.”
The 87-year-old’s words, to diplomats at the Vatican, came just days after he called for an investigation into claims Israel was conducting “genocide” of Palestinians in Gaza.
Marking 40 years of a peace deal between Chile and his native Argentina, Francis recalled ongoing conflicts and criticized the arms trade, highlighting “the hypocrisy of speaking about peace and playing at war.”
“This hypocrisy always leads us to failure,” he said in Spanish, adding that “dialogue must be the soul of the international community.”
“I simply mention two failures of humanity today: Ukraine and Palestine, where there is suffering, where the arrogance of the invader prevails over dialogue,” he added in an unscripted remark.
Francis, who took over as head of the worldwide Catholic Church in 2013, regularly prays for the people of Gaza and the “martyred” Ukraine, which Russia invaded in 2022.
Francis has also frequently called for the return of the Israeli hostages taken by Palestinian militants Hamas during the unprecedented Oct. 7, 2023, attack on Israel.
In extracts published this month of a forthcoming book, he called for claims that Israel was conducting “genocide” in Gaza — claims strongly rejected by Israel — to be “studied carefully.”
The Hamas attack resulted in the deaths of 1,206 people, mostly civilians, according to a tally of Israeli official figures.
Israel’s retaliatory campaign in Gaza has killed at least 44,235 people, most of them civilians, according to data from the Hamas-run territory’s health ministry, which the UN considers reliable.
The Vatican recognized the Palestinian territories as a sovereign state in 2013, signing a treaty in 2015.