Lesson plan
GOR method
The GOR method (short for Garnier–Osguthorpe–Robson) is an information theory-based method for the prediction of secondary structures in proteins. It was developed in the late 1970s shortly after the simpler Chou–Fasman method. Like Chou–Fasman, the GOR method is based on probability parameters derived from empirical studies of known protein tertiary structures solved by X-ray crystallography. However, unlike Chou–Fasman, the GOR method takes into account not only the propensities of individual amino acids to form particular secondary structures, but also the conditional probability of the amino acid to form a secondary structure given that its immediate neighbors have already formed that structure. The method is therefore essentially Bayesian in its analysis.
Article summary
The GOR method (short for Garnier–Osguthorpe–Robson) is an information theory-based method for the prediction of secondary structures in proteins. It was developed in the late 1970s shortly after the simpler Chou–Fasman method. Like Chou–Fasman, the GOR method is based on probability parameters derived from empirical studies of known protein tertiary structures solved by X-ray crystallography. However, unlike Chou–Fasman, the GOR method takes into account not only the propensities of individual amino acids to form particular secondary structures, but also the conditional probability of the amino acid to form a secondary structure given that its immediate neighbors have already formed that structure. The method is therefore essentially Bayesian in its analysis.
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Discussion questions
- Summarise the article in your own words. Which single claim would you verify first, and why?
- Which claim in this article is most likely to be revised as the sources update? How would you check its current status?
- If two sources disagreed about one of these facts, what would you need in order to trust one over the other?
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