3DNA Forum

Questions and answers => General discussions (Q&As) => Topic started by: Orn on August 19, 2011, 12:32:50 pm

Notice: The 3DNA Forum is now a read-only archive. See the announcement.
All active support and discussions have moved to GitHub Discussions!

Title: Analyzing ssDNA
Post by: Orn on August 19, 2011, 12:32:50 pm

Hi Dr. Lu,

I am trying to compare the structure of my ssDNA to that of standard B- and A-form DNA. I have already generated the .inp file for the analyze command. However, when I ran the script it, I received the following error message "illegal number (<=0) of base-pairs".

Sincerely,
Orn

Title: Re: Analyzing ssDNA
Post by: xiangjun on August 19, 2011, 09:08:53 pm

Hi Orn,

Thanks for using 3DNA.

The error message means your ".inp" file does not match your ".pdb" file. Try:
[pre:3dmejz8w]find_pair -s your.pdb stdout[/pre:3dmejz8w]what do you get?

If that does not help solve your puzzle, please provide your ".inp" and ".pdb" files so I can check into the details.

HTH,

Xiang-Jun

This forum is archived. Please post new questions on GitHub Discussions!