Enzyme db creator

Typing name : TASK.gws_biota.EnzymeDBCreator

Brick : gws_biota

Download the online folders/files from BRENDA, ebi.ac.uk and ncbi databases and use them to load the “biota_enzyme” table from the BIOTA database.

Base class

Input

Enzyme file

Enzyme file from BRENDA database

File

link to bto

Resource that holds a text

Optional

Text

link to taxonomy

Resource that holds a text

Optional

Text

link to protein

Resource that holds a text

Optional

Text

Output

Text

Resource that holds a text

Optional

Text

Configuration

bkms_file

Optional

Type : string

Default value : https://bkms.brenda-enzymes.org/download/Reactions_BKMS.tar.gz

expasy_file

Optional

Type : string

Default value : https://ftp.expasy.org/databases/enzyme/enzclass.txt

compound_file

Optional

Type : string

Default value : https://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi.obo

bto_file

Optional

Type : string

Default value : https://raw.githubusercontent.com/BRENDA-Enzymes/BTO/master/bto.owl

taxdump_files

Optional

Type : string

Default value : https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz

Input

Output

Configuration

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