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).
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).
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).
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Good informative post, thanks for sharing.
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ReplyDeleteGot the answer and Thanks for your information. File names should be given in small letters,like 1ubq.pdb
ReplyDeleteThis doesn't work. The source code has bugs.
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