Biochemical Reaction Annotations (KEGG-Based)
reaction_annotation.RdA structured annotation table of biochemical reactions, primarily derived from KEGG reaction identifiers. Each entry maps a unique reaction ID to a human-readable reaction name or formula, representing enzymatic or spontaneous transformations of biological molecules. This dataset supports annotation of nodes labeled as "Reaction" in the pKOI framework.
Format
A data frame with 24659 rows and 2 columns:
- identifier
A character string representing the KEGG reaction ID (e.g., "R04184").
- name
The reaction name or stoichiometric equation (e.g., "globoside N-acetylhexosaminohydrolase; ..."). This may be `NA` for reactions without an assigned label or formula.
Source
KEGG Reaction Database https://www.genome.jp/kegg/reaction/
Details
Reactions describe biochemical events such as substrate-to-product transformations catalyzed by enzymes or occurring spontaneously. This dataset allows enrichment and interpretation of pathway-embedded biochemical steps, enhancing systems-level understanding of metabolic or signaling processes.
The `identifier` field enables joining with reaction nodes in pKOI network output, and the `name` column provides interpretability in reporting or visualization.
Examples
data(reaction_annotation)
subset(reaction_annotation, grepl("glucosyl", name, ignore.case = TRUE)) |> head()
#> identifier
#> 1 R04184
#> 3 R13178
#> 5 R04586
#> 83 R02118
#> 84 R02179
#> 151 R02380
#> name
#> 1 globoside N-acetylhexosaminohydrolase; alpha-D-Galactosyl-(1->4)-beta-D-galactosyl-(1->4)-beta-D-glucosyl-(1<->1)-ceramide + N-Acetyl-D-galactosamine <=> Globoside + H2O
#> 3 D-glucosylsphingosine glucohydrolase; D-Glucosylsphingosine + H2O <=> D-Glucose + Sphingosine
#> 5 N-acetyl-D-galactosaminyl-(N-acetylneuraminyl)-D-galactosyl-D-glucosylceramide N-acetylhexosaminohydrolase; N-Acetyl-D-galactosaminyl-(N-acetylneuraminyl)-D-galactosyl-D-glucosylceramide + H2O <=> GM3 + N-Acetyl-D-galactosamine
#> 83 UDPglucose:zeatin O-beta-D-glucosyltransferase; UDP-glucose + Zeatin <=> UDP + O-beta-D-Glucosylzeatin
#> 84 UDPglucose:(-)-menthol O-beta-D-glucosyltransferase; UDP-glucose + (-)-Menthol <=> UDP + (-)-Menthyl O-beta-D-glucoside
#> 151 UDPglucose:sinapate D-glucosyltransferase; UDP-glucose + Sinapate <=> UDP + 1-O-Sinapoyl-beta-D-glucose