Messages

1

Bug reports / Re: Missing DNA bases with negative residue number

« on: April 14, 2026, 01:23:48 pm »

Hello Xiang-Jun,

I used the online tool for DNA mutation.

On the page https://web.x3dna-dssr.org/mutation

I entered PDB ID: "9GBV" in the left box. Then clicked on the "List all bases" button.

On the next page, I see bases listed for chains E (from resid number 0 to 121) and F (from resid number 0 to 80).

However, if you check the sequence map on the RCSB (https://www.rcsb.org/3d-view/9GBV), you would see that chain E residues range from -37 to 121, and chain F residues range from -78 to 80.

Please let me know if you need more information.

Best,
Mihir

2

Bug reports / Missing DNA bases with negative residue number

« on: April 14, 2026, 08:51:15 am »

The PDB ID: 9GBV has 217 bp long dsDNA (Chain E & F). I plan to perform a mutation in some bases. But many of the bases are not displayed. Specifically, all the bases having a negative residue number are omitted by the portal.