Skip to main content

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.