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- W2018068027 abstract "Protein chain entanglement has generally been discussed in terms of knots. We propose to replace this conceptual model with that of loop penetration: one segment of the protein encircled by another. Of these two structural concepts the latter is the more general, since all knots contain at least one penetrated loop, while all structures with penetrated loops are not necessarily knots. Under certain conditions loop penetration can be detected in a protein, the three-dimensional structure of which is unknown. To begin, a protein is represented by a linear graph. The cysteine ..cap alpha..-carbons are the vertices of the graph, and an edge is drawn between two vertices only if there is, between the two corresponding cysteine residues, a covalent pathway through either the protein backbone or a disulfide bond. This particular graph representation is an adjacency relation for cysteine residues in proteins. It is trivial when no disulfide bonds are present; thus, only proteins with disulfide bonds are worth considering. The determination of loop penetration is based upon the conjecture that, if a protein's graph representation is nonplanar, then its three-dimensional structure contains a penetrated loop. A graph is planar when it can be drawn on a plane in suchmore » a way that no one edge crosses any other edge; otherwise, the graph is nonplanar.« less" @default.
- W2018068027 created "2016-06-24" @default.
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- W2018068027 date "1980-10-01" @default.
- W2018068027 modified "2023-09-29" @default.
- W2018068027 title "Loop penetration in proteins" @default.
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- W2018068027 doi "https://doi.org/10.1016/s0006-3495(80)84936-8" @default.
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