Amber

Amber (Assisted Model Building with Energy Refinement) refers to two things: a set of molecular mechanical force fields for the simulation of biomolecules Ponder2003,Cheatham2001 (which are in the public domain, and are used in a variety of simulation programs); and a package of molecular simulation programs Case2005 which includes source code and demos. The current version of the code is Amber version 10, which is distributed by UCSF subject to a licensing agreement.

Amber is now distributed in two parts: AmberTools and Amber10. You can use AmberTools without Amber10, but not vice versa.

Tutorials

• Beginners' and Advanced Tutorials

References

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1. Case2005 pmid=16200636
2. Ponder2003 pmid=14631816
3. Cheatham2001 pmid=11754338

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