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Biopolymer Force Field

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Created by David Mobley, last modified on Apr 02, 2020

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This is a placeholder page to begin discussion/planning regarding biopolymer force fields. David Cerutti (Deactivated) will soon begin working in this area.

Objective

Build an OpenFF protein force field

Objectives for 2020:

Bring in an AMBER protein force field to SMIRNOFF format
Build an OpenFF protein force field (and later, biopolymer) which includes protein-specific parameters where needed (especially torsions) but works naturally with the small molecule force field

Team

Project leader: David Cerutti (Deactivated)

Team members: Jeffrey Wagner David Mobley and others TBD

Tasks:

Michael Shirts - let us know when Cerutti start date looks likely to be (resolved, he is starting now).
David Mobley and Jeffrey Wagner coordinate re Cerutti onboarding/initial work plan

Meeting notes:

Initial work planning session/getting started: https://openforcefield.atlassian.net/wiki/spaces/SCI/pages/205029510/2020-03-26+Meeting+notes?src=mail&src.mail.timestamp=1585238938293&src.mail.notification=com.atlassian.confluence.plugins.confluence-mentions-plugin%3Amention-created-notification&src.mail.recipient=8a7f80896e8f036d016ea46a7f500a13&src.mail.action=view
More details on how to port protein FF: 2020-04-01 AMBER FF porting meeting notes

Helpful resources:

Chris Bayly’s hand-drawn SMIRKS for possible backbone torsions, see 2020-04-01 AMBER FF porting meeting notes (original source Slack photo of whiteboard drawing from in-person meeting: https://openforcefieldgroup.slack.com/archives/C4VHEFXS5/p1585771147024400)

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