Connection topology of proteins.
One-dimensional amino acid sequences and three-dimensional folded polypeptide chains were modelled as non-directed graphs in which nodes corresponded to amino acids and arcs represented connections between them. In the case of folded chains, non-backbone connections were assigned to amino acid pairs if their distance was lower than a threshold. Two topological indices, the connectedness number and the effective chain length were devised to compare folding topologies. Loops created by non-backbone connections in the structure graphs were studied by simple graphical representations, revealing the hierarchy in native protein structures.
Aszódi
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Laboratory of Mathematical Biology, National Institute for Medical Research, London, UK.
Taylor
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D000595:Amino Acid Sequence; D000818:Animals; D003196:Computer Graphics; D006801:Humans; D008956:Models, Chemical; D015394:Molecular Structure; D017510:Protein Folding; D011506:Proteins / Q000737:chemistry*; D012984:Software
D011506:Proteins