ClassifyReaction

ClassifyReaction[reactants, products]⟹reactionType

given a set of nucleic acid reactants and products, determines the classical type of a nucleic acid secondary structure transformation involved in parameterizing its kinetic behavior.

Details

Definitions of reaction classifications can be found in Object[Report, Literature, "id:XnlV5jmalqMZ"]: Frezza. "Orchestration of Molecular Information through Higher Order Chemical Recognition."

Input

Output

Messages

UnknownStructure Unable to interpret the provided structure. Please use StructureQ on the input for more information on the issue with the provided structure.

Examples

Basic Examples (4)

Classify a folding reaction by checking if new bond is formed within the reactant structure:

Classify a melting reaction by checking if at least one bond in the reactant structure does not exist in product structure:

Classify a hybridization reaction by checking if new bond is formed between reactant structures to form one new product structure:

Classify a dissociation reaction by checking if at least one bond in the reactant structure is melted and the reactant is dissociated into at least two product structures:

Additional Examples (13)

Dissociation (1)

Classify as Dissociation if reactant structure is dissociated into at least two structures:

DualToeholdMediatedDuplexExchange (1)

Classify as DualToeholdMediatedDuplexExchange if there are valid dual toehold regions on both reactants which initiate a duplex invasion:

DuplexInvasion (1)

Classify as DuplexInvasion if two sides of the shared bonded regions in two reactant structures get switched:

Folding (1)

Classify as Folding reaction if new bonds are formed within the reactant structure::

Hybridization (1)

Classify as Hybridization if two reactants react into one product by forming new bonds between them:

Melting (1)

Classify as Melting if at least one bond is melted from reactant structure:

StrandInvasion (1)

Classify as Strandinvasion if one side of the bonded region in one of the reactant structures get replaced by the exactly same segment in the other reactant structure:

ToeholdMediatedDuplexExchange (1)

Classify as ToeholdMediatedDuplexExchange if there is a valid toehold region on one of the reactant which initiates a duplex invasion:

ToeholdMediatedStrandExchange (1)

Classify as ToeholdMediatedStrandExchange if there is a valid toehold region on one of the reactant which initiates a strand invasion:

Unchanged (1)

Reaction is classified as Unchanged if reactant(s) and product(s) are exactly the same:

Unknown (1)

Reaction is classified as Unknown if strands in reactants and products are different:

Unzipping (1)

Classify as Unzipping if a bond in reactant structure is shortened on at least one side:

Zipping (1)

Classify as Zipping if a bond in reactant structure is extended on at least one side:

Messages (1)

UnknownStructure (1)

Both reactant(s) and product(s) must be valid Structures: