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Results tagged with pymol
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user 3848
A python-based scripting language to visualise 3-D structures, especially of proteins.
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PDB file downloading: pymol automation vs. manual
I automated a PDB download using a Pymol script (below)
python
pdb_lists = ['3LZG', '6HJN'] # lots more pdbs
for x in pdb_lists:
cmd.fetch(x)
cmd.select(x)
cmd.save(x + '.pdb', x)
cmd.delete … (x)
cmd.quit()
python end
When the script is run within Pymol it pulls down a collection of pdbs, however this flopped when I plugged it through a Biopython PDB parser, but was okay when I manually downloaded …
M__♦
- 13k