Improving Predictions of Protein Active Sites
Author Information
Author(s): Gong Sungsam, Blundell Tom L., Levitt Michael
Primary Institution: University of Cambridge
Hypothesis
Discarding functional residues from substitution tables will enhance the prediction of active sites in proteins.
Conclusion
The new methodology significantly improves the prediction of active sites by increasing the Z-score and identifying more functional residues.
Supporting Evidence
- The new ESSTs increased the Z-score by 98% at active site residues.
- The methodology found 16% more active sites compared to the old ESST.
- Discarding amino acids responsible for protein–protein interactions improved predictions.
Takeaway
This study shows that by ignoring certain important parts of proteins, we can better guess where the action happens in them.
Methodology
The study used the CRESCENDO program to test new Environment Specific Substitution Tables (ESSTs) that exclude functional residues.
Potential Biases
Potential bias from incomplete annotations of functional residues.
Limitations
The study may have high false positives and negatives due to the restricted definition of functional residues.
Statistical Information
P-Value
0.09
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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