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Table 6 An amino acid representation hypothesis

From: Automated identification of protein-ligand interaction features using Inductive Logic Programming: a hexose binding case study

bind(A):-

 
 

has_aminoacid(A,B,asp),

 

atom_to_atom_dist(B,B,’N’,’OD2’,4.6,0.5),

 

has_aminoacid(A,C,leu),

 

has_aminoacid(A,D,cys),

 

atom_to_center_dist(B,’C’,7.6,0.5).

  1. English translation: A protein is hexosebinding if the N and OD2 atoms of an aspartic acid are 4.6+/-0.5 Angstroms away from each other and the C atom of this aspartic acid is 7.6+/-0.5 Angstroms away from the binding center, a leucine and a cysteine are also present.
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BMC Bioinformatics

ISSN: 1471-2105

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