Primary Citation PubMed: 8634242
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Recognizing protein-protein interfaces with empirical potentials and reduced amino acid alphabets.
(2007) BMC Bioinformatics 8
PubMed: 17662112 | PubMedCentral: PMC2034607 | DOI: 10.1186/1471-2105-8-270
• 1FBT : This structure illustrates the worst case.
Decoy energies as a function of the structural deviation from native for three complexes: 1AR0 (top), 1BJF (middle) and 1FBT (bottom), using the energy function with 20 amino acid classes.
To illustrate further the behavior of our energy functions, we consider the structures 1AR0 , 1BJF , and 1FBT , which represent three typical situations.
Finally, for 1AR0 , 1BJF , and 1FBT , Fig.
Native and decoy energy distributions for three complexes: 1AR0 (top), 1BJF (middle) and 1FBT (bottom), using the energy functions with two (left), six (middle), and 20 amino acid classes (right).
For 1FBT , the energy/structure correlation is fair, even though the native structure is not well-discriminated; the decoys that have a lower energy correspond to very different structures with a different, competing binding mode.
Publication Year: 2007
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