On Thu, Jan 08, 2026, Manasa Bharath ic44158 via AMBER wrote:
>Could anyone please tell how to obtain a Z-DNA structure throught the
>nucleic acid builder from AmberClassic?
You could look in Section 23.3 of the AmberClassic manual for one approach.
But I would recommend starting with 3DNA
(
http://web.x3dna.org/index.php/fibermodel), especially if you have a very
CG-rich sequence.
A second idea is just to grab a PDB file that has a Z-DNA that is closest to
the DNA sequence you are interested in, and start from there.
Others on the list may have better advice -- I think a lot depends on what
the base sequence is, and on what you hope to learn.
....dac
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Received on Thu Jan 08 2026 - 21:30:03 PST
