Hello,
I would like to perform a research on 4za7 protein. As long as using
Modeller to insert missing residues is rather straightforward, the
issue I have encountered is more related to PDB file itself. In the
remark 465 section in the original pdb file, there are listed several
missing residues:
REMARK 465 M RES C SSSEQI
REMARK 465 MET A 1
REMARK 465 SER A 2
REMARK 465 ALA A 3
REMARK 465 ASN A 499A
REMARK 465 LEU A 499B
REMARK 465 GLU A 499C
REMARK 465 HIS A 506
REMARK 465 HIS A 507
The problem is that I lack the knowledge on how to deal with those
residues: 499A, 499B, 499C. I would most likely just insert 499A into
the structure that will be further analysed but in regular residues
that are normally placed in pdb file there is already a residue
numbered 499. For some reason though, there are no residues 500 and
501 in the pdb file.
How should I proceed with it? Should I just ignore those different
options for residue number 499 and go with the one that was properly
determined by X-ray experiment, or should I do something else? Any
suggestions from more experienced researchers will be welcome.
Kind regards,
Szymon Zaczek
