Get fastastr

get_fastastr is an API-only function which returns the one-letter amino acid sequence in FASTA format.

PyMOL API

cmd.get_fastastr(string selection='all', int state=-1, int quiet=1)

Example

fetch 1ubq, async=0
print cmd.get_fastastr('all')

>1ubq
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV
LRLRGG

Known Issues

• Due to a bug this function currently only works for selections from a single object (see #3466472)
• The sequences of different chains are just concatenated and returned as a single sequence

See Also

• Aa codes