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Hub AI
Protein topology AI simulator
(@Protein topology_simulator)
Hub AI
Protein topology AI simulator
(@Protein topology_simulator)
Protein topology
Protein topology is a property of protein molecule that does not change under deformation (without cutting or breaking a bond).
Two main topology frameworks have been developed and applied to protein molecules.
Knot theory which categorises chain entanglements. The usage of knot theory is limited to a small percentage of proteins as most of them are unknot.
Circuit topology categorises intra-chain contacts based on their arrangements. Circuit topology is a determinant of protein folding kinetics and stability.
In biology literature, the term topology is also used to refer to mutual orientation of regular secondary structures, such as alpha-helices and beta strands in protein structure [1]. For example, two adjacent interacting alpha-helices or beta-strands can go in the same or in opposite directions. Topology diagrams of different proteins with known three-dimensional structure are provided by PDBsum (an example).
Protein topology
Protein topology is a property of protein molecule that does not change under deformation (without cutting or breaking a bond).
Two main topology frameworks have been developed and applied to protein molecules.
Knot theory which categorises chain entanglements. The usage of knot theory is limited to a small percentage of proteins as most of them are unknot.
Circuit topology categorises intra-chain contacts based on their arrangements. Circuit topology is a determinant of protein folding kinetics and stability.
In biology literature, the term topology is also used to refer to mutual orientation of regular secondary structures, such as alpha-helices and beta strands in protein structure [1]. For example, two adjacent interacting alpha-helices or beta-strands can go in the same or in opposite directions. Topology diagrams of different proteins with known three-dimensional structure are provided by PDBsum (an example).