This is a read-only mirror of pymolwiki.org

Get fastastr

From PyMOL Wiki
Jump to navigation Jump to search

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

Retrieved from "http://wiki.pymol.org/index.php?title=Get_fastastr&oldid=13954"