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Enzyme mapping of annotated sequences was done by direct GO to Enzyme annotation and used to query the Kyoto Encyclopaedia of Genes and Genomes (KEGG -, [ 47- 49]) to define the main metabolic pathways involved.
Enzyme mapping of the annotated sequences was performed using a direct GO to Enzyme annotation, and this programme was also used to query the KEGG maps to define the main metabolic pathways involved.
Therefore a series of algorithms was built to (a) extract local motifs (3D templates) from protein structures based on ET ranking of residue importance; (b) to assess their geometric and evolutionary similarity to other structures; and (c) to transfer enzyme annotation whenever a plurality was reached across matches.
Enzyme annotation.
In addition 3,354 were assigned an enzyme annotation.
Enzyme annotation was obtained from the sequence annotation and GO classification data.
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An average twofold increase in enzyme annotations is seen for 523 proteomes in Gene3D.
Compound pages display a set of name, pathway and enzyme annotations inferred from KEGG as well as the in silico predicted reactions that a compound may take part in as a reactant or product.
Additional file 2: Pathway and enzyme annotations for blueberry genes and transcripts.
When provided by the enzyme annotations, these numbers directly specify which reactions they catalyze.
Based on orthologous annotations (see OrthoMCL clustering below) these enzyme annotations were transferred to the E. falciformis proteome.
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