finding segment from multiple files
import Bio.PDB as PDB
p = PDB.PDBParser()
s = p.get_structure("1aac", "1aacH")
io = PDB.PDBIO()
io.set_structure(s)
outfile = '1aac.pdb'
io.save(outfile)
print("Printed %s" % outfile)
i need to add a loop for getting structure of 50 more files in my folder
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a4appy23 •
1 answer
If you want to learn how to loop files in a directory, just look at (for instance) this link:
https://stackoverflow.com/questions/10377998/how-can-i-iterate-over-files-in-a-given-directory
You could really have googled this in no time at all.
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Please spend more time on your question. This is too vauge, and lacks any reproducible examples.
For instance, it’s not clear what peptides you want, what relevance the filenames have, or what relevance your PDB searches were.
To get better answers, you should also show some attempt at writing the code you expect from us...
i edited the question
You want do download 100 PDB files?
i downloaded a zip file from this link i need read these files in python the problem is these files dont have extension as .pdb
The extension doesn’t matter. Extensions are arbitrary. If they are PDB files internally, you can just add the extension on, but it isn’t needed.
but i get a pdb construction warning..how do i add a loop here for 50 remaining files
Please don’t delete content from your posts that is needed to answer your question. Without that link, we can’t test your data.
Hello a4appy23!
We believe that this post does not fit the main topic of this site.
Not really a bioinformatics question, and is a duplicate of an earlier post by OP
For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
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