A novel ensemble-based scoring and search algorithm for protein redesign, and its application to modify the substrate specificity of the gramicidin synthetase a phenylalanine adenylation enzyme.
Ryan H. LilienBrian W. StevensAmy C. AndersonBruce Randall DonaldPublished in: RECOMB (2004)
Keyphrases
- search algorithm
- amino acids
- dead end
- protein folding
- drug discovery
- protein sequences
- predicting protein
- ensemble learning
- protein structure
- protein function
- ensemble methods
- search space
- business process
- protein families
- secondary structure
- branch and bound
- neural network
- protein protein interactions
- design process
- protein structure prediction
- training data
- magnetic recording
- scoring model
- mass spectrometry
- subcellular localization
- contact map
- multiple sequence alignments
- random forest
- heuristic search
- amino acid sequences
- physicochemical properties
- hill climbing
- ensemble classifier
- sequence alignment
- random forests
- selection algorithm
- benchmark datasets
- training set
- feature selection
- learning algorithm