https://github.com/mdanalysis/pystride

Python bindings to STRIDE
https://github.com/mdanalysis/pystride

Last synced: 5 months ago
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Python bindings to STRIDE

• Host: GitHub
• URL: https://github.com/mdanalysis/pystride
• Owner: MDAnalysis
• License: mit
• Created: 2017-08-09T18:47:13.000Z (almost 9 years ago)
• Default Branch: master
• Last Pushed: 2017-08-10T00:53:21.000Z (almost 9 years ago)
• Last Synced: 2024-10-29T17:29:00.196Z (over 1 year ago)
• Language: Python
• Size: 725 KB
• Stars: 4
• Watchers: 8
• Forks: 1
• Open Issues: 1
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          
Python bindings for STRIDE: Protein secondary structure assignment from atomic coordinates

About STRIDE:

STRIDE [1] is a program to recognize secondary structural elements  in

proteins from  their atomic coordinates. It performs the same task as

DSSP by Kabsch and Sander [2] but utilizes both hydrogen bond  energy

and  mainchain  dihedral angles rather than hydrogen bonds alone. It

relies on database-derived recognition parameters with the

crystallographers' secondary structure definitions as a standard-of-

truth. Please see Frishman and Argos [1] for detailed description  of

the algorithm.

 1.  Frishman,D	& Argos,P. (1995) Knowledge-based secondary structure

     assignment.  Proteins:  structure,	function and genetics, 23,   

     566-579.

 2.  Kabsch,W. & Sander,C. (1983)  Dictionary  of  protein  secondary

     structure:	   pattern   recognition   of	hydrogen-bonded	  and

     geometrical features. Biopolymers,	22: 2577-2637.

About the python bindings:

```python

import pystride

pystride.stride('adk_oplsaa.pdb')

```