Tuesday, August 27, 2013

Aligning PDB structures with Biopython

You can use the Bio.PDB module in Biopython to align PDB files. This is how I did it. The code should be pretty much self-explanatory.

In this example I align the crystal structure of Ubiquitin (PDB code: 1UBQ) to the first structure of a corresponding NMR ensemble (PDB code: 1D3Z, see picture below).


8 comments:

  1. The resembling of the codes towards the queries and the theories also been of the more interesting that this sometimes become difficult to sort out those of the aligning options to your side. research papers writing

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  2. Good informative post, thanks for sharing.

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  3. It was already believed that among the aligning and pdb structures you will of course find it quite efficient and comfortable to you is that those are useful with certain aspects, so it would be so good to go further. assignment help australia

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  5. Got the answer and Thanks for your information. File names should be given in small letters,like 1ubq.pdb

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  6. This doesn't work. The source code has bugs.

    ReplyDelete