National Anton Resource for Biomolecular Simulation

Logo consisting of Anton name

Anton is a special-purpose supercomputer for biomolecular simulation designed and constructed by D. E. Shaw Research (DESRES).  PSC eagerly anticipates that the third-generation Anton system will become operational at PSC in early spring 2025.  This 64-node Anton system will replace and greatly enhance the capabilities of PSC’s second-generation machine.

 

Anton systems were designed to vastly accelerate the process of molecular dynamics (MD) simulation. With Anton, biomedical researchers can gain valuable insight into the motions and interactions of proteins and other biologically important molecules. The MD research community uses Anton at PSC to investigate significant biological phenomena that due in part to their intrinsically long timescales have been outside the reach of even the most powerful general-purpose supercomputers.

The third-generation Anton is the first and only resource available to the community capable of simulating multiple millions of atoms at speeds of microseconds per day, thus achieving biologically relevant timescales in a timely manner. The ability to simulate millions of atoms in a reasonable timeframe will bring new understanding of large biological systems such as viruses and ribosomes and of phenomena that occur in the millisecond timescale, such as protein folding, aggregation, and membrane deformations.

Anton at PSC is made available without cost by DESRES for non-commercial research use by US universities and other not-for-profit institutions, and is hosted by PSC with operational support from the NIH National Institute of General Medical Sciences.

Contact anton-support@psc.edu with any questions about Anton at PSC.

Using Anton

Documentation on using Anton will be available prior to the third-generation Anton system at PSC coming online in early 2025.

Anton End User Agreement

Please review the terms and conditions of the End User Agreement (EUA) for the Use of Anton at PSC before submitting a proposal.

Once the awards have been made, a form will be provided through which you can acknowledge that you have read, understood, and agreed to your responsibilities as an Anton user by accepting the terms and conditions of the Anton EUA.

All users, including PIs and group members, who are awarded time on Anton must agree to the terms of the EUA before they receive access to Anton or to the introductory workshop.

Introductory workshop

A workshop covering all aspects of running MD simulations on Anton is presented each year. It is offered by invitation only to the most recent allocations awardees.

Apply

Anton is allocated annually via a Request for Proposals with proposals reviewed by a committee convened by the National Research Council at the National Academies of Sciences, Engineering, and Medicine.

To qualify for an allocation on Anton, the principal investigator must be a faculty or staff member at a US academic or not-for-profit research institution.

The Anton RFP period is closed. Be sure to watch for an announcement about the next RFP opportunity next summer.

 

Preparing a proposal

To help with proposal submissions, we offered two webinars on September 23, 2024:

2:00-3:00 PM (EDT)   – Anton 3 Capabilities and Enhanced Sampling Techniques 

This webinar introduced the third-generation Anton system to the research community, explaining its capabilities and enhanced sampling techniques.

3:00-4:00 PM (EDT)  – How to Write a Successful Anton Proposal 

This webinar explained how to prepare a successful application and who qualifies to apply.

Update:  The minimum number of atoms has been lowered to 100,000.

Anton Simulations Reveal How Alzheimer’s Fibril Growth May Accelerate

Unexpected Way for Amyloid Peptides to Join Fibrils Explains Time Lag, then Accelerated Growth, in Fibril Formation and Disease Progression

$3.15 Million from NIH to Fund Operation of Third-Generation Anton Supercomputer at Pittsburgh Supercomputing Center

Designed and Built by D. E. Shaw Research, System Will Simulate Biomolecules Roughly 100 Times Faster than General-Purpose Supercomputers

Anton Simulations Explain Delay in CRISPR-Cas12a’s DNA-Cutting Function

Understanding Unexpected Motion of Protein Will Be Crucial for Engineering it for DNA Detection, Editing

Voltage-sensing Protein Moves in Unexpected Ways in Anton Simulations

University of Chicago Simulations Offer Clues to Behavior of Nerve Cell Channels Underlying Human Diseases

“Invisible” Protein Movements Revealed by Anton 2 Simulations

Interactions not before seen between medically important beta-adrenergic receptor and its associated G protein offer clues to better heart, lung, and other medications.

Anton 2 Simulations Reveal Unexpected Role for Brain Neurotransmitter

Ability of D-serine to switch from boosting excitatory signals to blocking them suggests route for preventing long-term injury or stroke damage

Anton 2, Bridges-2 Simulations Explain Life-Critical Protein in the Brain

Complementary strengths of researchers, computers help identify structure and motions of protein and its electrical conductance through the nerve-cell membrane

Anton 2 Sims Suggest How Fish Oil Health Benefits Start at Cell Membrane

Molecular simulations coupled with AI analysis reveal how omega-3 polyunsaturated fatty acids may regulate the size of membrane “rafts”

Anton 2 Simulations Explain Mechanism for Loading DNA into Virus

Two-phase Motor Packages DNA into Viral Capsids, May Offer Drug Target

Anton 2 Operational

Anton 2, a specialized supercomputer developed by D. E. Shaw Research that simulates the motions of biomolecules, has replaced the original Anton 1 system previously at PSC. The new machine, operationally supported through a grant from the National Institutes of Health, enables life scientists to simulate much larger biomolecules for longer timescales than was previously feasible.

Publications

View publications enabled by research that made use of Anton systems at PSC.

Contact us

For questions about Anton at PSC, email anton-support@psc.edu.

Acknowledgement in publications

Please use the following paragraph (or similar) to cite your work conducted on Anton. Proper acknowledgment is critical for our ability to solicit continued funding for the project.

Acknowledgement for Anton 3

Anton 3 computer time was provided by the Pittsburgh Supercomputing Center (PSC) through Grant 1R24GM154042 from the National Institutes of Health. The Anton 3 machine at PSC is made available by D. E. Shaw Research.
Copy this text

 

The proper citation for Anton 3 is:

Shaw DE, Adams PJ, Azaria A, Bank JA, Batson B, Bell A, et al. Anton 3: twenty microseconds of molecular dynamics simulation before lunch. SC ’21: The International Conference for High Performance Computing, Networking, Storage and Analysis. ACM; 2021. https://doi.org/10.1145/3458817.3487397Copy this text

Acknowledgement for Anton 2

Anton 2 computer time was provided by the Pittsburgh Supercomputing Center (PSC) through Grant R01GM116961 from the National Institutes of Health. The Anton 2 machine at PSC was made available by D.E. Shaw Research.Copy this text

 

The proper citation for Anton 2 is:

Shaw, David E., J.P. Grossman, Joseph A. Bank, Brannon Batson, J. Adam Butts, Jack C. Chao, Martin M. Deneroff, et al. “Anton 2: Raising the Bar for Performance and Programmability in a Special-Purpose Molecular Dynamics Supercomputer,” 41–53. IEEE, 2014. doi:10.1109/SC.2014.9. Copy this text

Acknowledgement for Anton 1

Anton computer time was provided by the Pittsburgh Supercomputing Center (PSC) through Grant R01GM116961 from the National Institutes of Health. The Anton machine at PSC was made available by D.E. Shaw Research.Copy this text

 

The proper citation for Anton 1 is:

Millisecond-Scale Molecular Dynamics Simulations on Anton, D. E. Shaw et al., Proceedings of the ACM/IEEE Conference on Supercomputing (SC09), Portland, Oregon (2009).Copy this text

Anton at PSC is a resource of the NIGMS National and Regional Resources Program. Its operations are supported by the National Institute of General Medical Sciences of the National Institutes of Health under Award Number 1R24GM154042. This content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.