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Argonne National Laboratory’s Efforts In Fight Against Coronavirus; Scientists Build Outbreak Models, Discover Critical Protein That Lets Coronavirus Hide from Immune System

Wed March 25 2020 8:51 pm  https://www.arlingtoncardinal.com/?p=581652
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Scientists at Argonne National Laboratory and a supercomputer are helping in the fight against the coronavirus. Dr. Stephen Streiffer of Argonne spoke with via Skype.

Scientists discover critical protein that lets virus hide from immune system

CHICAGO — A new potential drug target has been identified in SARS CoV-2 — the virus that causes COVID-19 — by scientists who say multiple drugs will be needed to treat the pandemic.

Scientists from Northwestern University Feinberg School of Medicine have mapped the atomic structure of two critical proteins in a complex, nsp10/16. These proteins modify the genetic material of the virus to make it look more like the host (human) cell RNA.

This allows the virus to hide from the cells, giving it time to multiply. If a drug can be developed to inhibit nsp10/nsp16, the immune system should be able to detect the virus and eradicate it faster.




“This is a really beautiful target, because it’s a protein absolutely essential for the virus to replicate,” said lead investigator Karla Satchell.

Satchell is a professor of microbiology-immunology at Northwestern and director of Center for Structural Genomics of Infectious Diseases (CSGID), an international consortium of scientists who are investigating the structure of the virus to aid drug development.

Satchell’s team is sending the new protein to Purdue University, the drug-discovery site of the center, to be screened for novel inhibitors that could be developed as new drugs.

The nsp10/nsp16 protein is called an RNA methyltransferase or MTase. It is comprised of two proteins bound together, which makes it more difficult to work with. The association of the two pieces together is required to make a functional protein, according to prior research on SARS.

The structure of nsp10/16 was released to the scientific community March 18 on the RSCB Protein Data Bank (www​.rcsb​.org).




This is the fourth protein structure of potential drug target of SARS-CoV-2 determined by the CSGID team of scientists.

“We need multiple drugs to treat this virus, because this disease is likely to be with us for a long time,” Satchell said. ​“It’s not good enough for us to develop a single drug. If COVID-19 develops a resistance to one drug, then we need others.”

Structures of three other proteins important for the replication of the virus were also released: the nsp15 endonuclease, nsp3 ADP ribose phosphate and nsp9 replicase. These structures were determined by the center scientists at University of Chicago headed by professor Andrzej Joachimiak, Distinguished Fellow at the U.S. Department of Energy’s (DOE) Argonne National Laboratory, who also is an adjunct professor at Northwestern. All work conducted by both the University of Chicago and Northwestern teams was designed by the bioinformatic team of Adam Godzik at the University of California at Riverside based on research conducted on SARS.

The center is racing to release more structures for drug development. The center’s goal is to determine structures of all of the proteins that are potential drug targets. The team also is collaborating to provide proteins to investigators for design of improved vaccines.

Data for this structure was collected at the Northwestern managed Life Sciences Collaborative Access Team beamline at the Advanced Photon Source (APS) at Argonne. The LS-CAT staff worked quickly with APS and Satchell to provide rapid access to the beamline over a weekend specifically to collect data for this project.

​“The center has shown a great ability to bring structure biology to the scientific community at an unprecedented rate,” Satchell said. But their work has become more challenging because so many universities have reduced activities and some labs have shut down entirely.

“Our ability to do experiments is abating,” Satchell said. Still, the center will continue to release new structures until they reach their goal, she said.




The CSGID is funded as a contract from the National Institute of Allergy and Infectious Diseases, part of the National Institutes of Health (NIH), in part to serve as a response site to conduct structure biology research in the event of an unexpected infectious disease outbreak. The NIAID has been working closely with the Center since early January to coordinate center activities with other research supported by NIAID and to share information from the center with NIAID personnel specializing in drug discovery.

This study has been funded by contract HHSN272201700060C from the National Institute of Allergy and Infectious Diseases of the NIH.

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