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Bioinformatics Programming

Extracting first and last residue from helix file in DSSP format.

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Extracting first and last residue from helix file in DSSP format.

Previously, we have provided a tutorial on using dssp_parser to extract all helices including long and short separately. Now, we have provided a new python script to find the first and last residue in each helix file.

You can extract these residues using the “start_end_helix_res.py” file. This file is provided in the package. Download the dssp_parser package from our GitHub account.

Usage:

The input files are long helices files that are obtained from parsing the initial dssp files of PDB structures. The output is a CSV file containing the helix name, start residue, and end residue of each file. Run the script as shown below:

$ python3 start_end_helix_res.py


For more information on this package, visit the following link:

dssp_parser: A new Python package to extract helices from DSSP files.

Dr. Muniba is a Bioinformatician based in New Delhi, India. She has completed her PhD in Bioinformatics from South China University of Technology, Guangzhou, China. She has cutting edge knowledge of bioinformatics tools, algorithms, and drug designing. When she is not reading she is found enjoying with the family. Know more about Muniba

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Bioinformatics Programming

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How to obtain ligand structures in PDB format from PDB ligand IDs?

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