building circular DNA

[x3dna_test]

Hi Xiangjun and All,

I am just wondering is it possible to build a circular DNA? I have seen one can analyse circular DNA with x3DNA but not sure how to build them and what parameters to be used.
Thanks.

[xiangjun]

Hi,

I'm not sure I fully understand your question in a practical sense. Please be specific.

The 3DNA rebuild can generate any structure (at the base-pair level) with a set of prescribed base-pair and step parameters. It's really up to the user to build what they want.

Best regards,

Xiang-Jun
 

[x3dna_test]

Hi Xiangjun,

I am just trying to create a DNA ring system and then do some simulations to study some properties.
Am not sure what parameters will be good as I do not have any experimental data.

[xiangjun]

I understood that you have been "trying to create a DNA ring system". 3DNA does not have a direct solution to this problem, neither will it likely in the general sense.

You may give NAB a try. If you find a way, please post back so other viewers may benefit.

Best regards,

Xiang-Jun