Dear Lan,
You can give the His-tag residues the same number as the previous residue,
combined with insertion codes (A-Z).
e.g. XXX20 - HIS20A - HIS20B - ... - HIS20F - YYY21
This is similar to what is done with insertions in e.g. antibody CDR H3
loops.
You can refer to the PDB specification for more info, e.g. column 27
("iCode") here:
https://www.wwpdb.org/documentation/file-format-content/format33/sect9.html#ATOM
I tend to edit insertion codes and residue numbers for the specific
inserted residues manually (e.g. in Vim), then use e.g. Coot or another
program (e.g. pdbset) to renumber the following residues.
Maybe others can chime in with other tools that might be useful.
Cheers,
Jared
On Wed, Apr 30, 2025 at 2:25 PM Guan, Lan <lan.g...@ttuhsc.edu> wrote:
> Dear All,
> I am working on a protein structure with a His tag in the middle of the
> protein. I would appreciate advice on retaining the native number in the
> protein sequence after this His tag.
> Best,
> Lan
>
>
> ***********************************************************************************
> Lan Guan, MD, PhD
> Professor | Department of Cell Physiology and Molecular Biophysics
> Co-Director | Center for Membrane Protein Research
> 3601 4th St. MS 6551
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>
> https://www.ttuhsc.edu/medicine/cell-physiology-molecular-biophysics/faculty/guan/
> https://www.ttuhsc.edu/centers-institutes/membrane-protein-research/
>
> ************************************************************************************
>
> https://www.biomedcentral.com/collections/col3028
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>
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