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How to get PDB IDs for many fasta sequences?
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2.2 years ago
sl_99 • 0

Hello, there are 2600 untitled fasta sequences and I need to get PDB ID for each of them if it is possible. How can I do it without searching them in PDB manually, maybe using python script or something?

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An alternative to blast would be HHPred too. This gives you PDB IDs as well as the relevant chains etc.

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You could do blast searches at NCBI and use PDB database to search against. You could also do the search locally if you have blast+ installed.

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