Selenocysteine In Pdb File
Hi!. Is normal replace the Selenocysteine (code: SEC, see) by a Alanine (ALA) ?
To the 1GP1 Entry in the PDB databank I see in PDB file the part:
> "SER LEU ***SE7*** GLY THR THR VAL ARG"
but i go to the fasta file i found this :
> SL **A** GTTVR
changed SE7 by A. This is normal ? It's correct ? I think the cause of this change is because in multiple alignment we don't have the entry to Selenocysteine in blosum matrix.
You agree ?
FASTA: http://www.rcsb.org/pdb/files/fasta.txt?structureIdList=1GP1
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You are almost correct, except that SE7 (not SEC) is 2-amino-3-selenino-propionic acid (not selenocysteine), also known as 3-selenino-L-alanine.
Since it is a modified alanine, the 1-letter code remains A.
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