Messages

1

General discussions (Q&As) / Assign bases to minor and major groove

« on: February 13, 2015, 11:01:56 am »

Dear Xiang-Jun,

I have a question: how can I assign bases to be located in the minor or in the major groove based e.g. on the "analyze: Minor and major groove widths"?
Is it even possible with those values or do I need another approach?
I ask because it is e.g. not always possible/advisable to just assume that the minor and major groove "switch" every 5 bases.
Thanks in advance!

Best regards,
Kerstin

2

RNA structures (DSSR) / DSSR output path

« on: November 17, 2014, 09:14:28 am »

Dear Xiang-Jun,

I have a question concerning the DSSR output path. How can I give the output path for the „additional files“ (dssr-torsions.txt etc.). I use the following command line:

x3dna-dssr -i=/Users/.../3DNA/1OCT.pdb -o=/Users/.../3DNA/1OCT_dssr.out

But the additional files are all saved in my home directory. I would like to save them together with 1OCT_dssr.out.

Thanks in advance!

Best regards
Kerstin