Can I traverse/enumerate PDB one at a time using a Python script without downloading all of them to my local disk?

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3.1 years ago

user366312 ▴ 20

What would be the total size of all PDB files in RCSB?

Can I traverse/enumerate them one at a time using a Python script without downloading all of them to my local disk?

I need a python script that is able to list the names one by one so that I can apply some kind of processing on each name.

python pdb-file proteins • 1.1k views

ADD COMMENT • link updated 3.1 years ago by Joe 21k • written 3.1 years ago by user366312 ▴ 20

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Last time I downloaded the PDB70 database it was about 30GB if memory serves. Best way to traverse the database without downloading them would be to use the Entrez tools I would think.

ADD REPLY • link 3.1 years ago by Joe 21k

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I need a python script that is able to list the names one by one so that I can apply some kind of processing on each name.

ADD REPLY • link 3.1 years ago by user366312 ▴ 20

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Take a look at tools like: https://github.com/williamgilpin/pypdb or the PDB RESTful API

ADD REPLY • link 3.1 years ago by Joe 21k

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