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Hello, ;)
Can I use 3DNA to build an atomic double strand model for any random DNA/RNA double strand , or it must be a sequence from PDB?
I'm interested mainly in seeing the double helix structure, but in 3D.
Thanks!!
best regards,
Anastasia
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Hi,
You can use:
fiber -seq=AAAAAAAAAAAA 12bpADE.pdb
To generate a helix of 12 base-pairs
or
fiber -seq=AAAAAAAAAAAA -single 12bpssADE.pdb
To generate a single strand with 12 Adenosine bases.
You can substitute with any nucleotide letter you want.
fiber -seq=ACTGTGCTGCTG my12bp.pdb
In general the fiber program (which is included in X3DNA) is what you're looking for.
Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.