Enzymes from the BRENDA database annotated with organism growth temperatures and predicted Topt

Experimental as well as predicted organism growth temperatures were used to annotate enzymes from the BRENDA database (doi: 10.1093/nar/gky1048, https://www.brenda-enzymes.org) version 2018.2 (July 2018). The growth temperature annotation can be used as an estimate of the enzymes catalytic optima. In addition to this, the sequence of each enzyme was taken into account to predict catalytic optima, which are more accurate than simply using OGT as an estimate.

The "enzyme_ogt_topt.tsv" file is a tab-separated file with the data headers: ec, uniprot_id, domain, organism, ogt, ogt_source, topt and topt_source. The ec column lists enzyme classes. The uniprot_id lists UniProt identifiers. The domain column lists the domain of life (superkingdom), either Archaea, Bacteria, or Eukarya. The organism column lists organism names, with strain designations removed and formatted to lowercase characters with an underscore _ separating the name parts. The ogt column lists, in degrees centigrade, the organism growth temperature. The ogt_source column lists whether experimental growth temperatures or predicted ones were used for the annotation. The topt column lists the enzyme catalytic optimum. Finally, the topt_source column lists whether experimental or predicted topt was used for the annotation.

The "brenda_sequences_20180109.fasta" file follows the standard FASTA format and contains the protein sequences for all annotated enzymes. UniProt identifiers are used as a header for each of the sequences.