I wish to obtain a list of all known enzymes and then get rid of the ones that use cofactors, the ones that use ATP, and a few others. What is the easiest way to do this?
ec:* NOT cofactor:(chebi:*) NOT annotation:(type:"catalytic activity" atp) AND reviewed:yes
...gives you all manually curated (
reviewed:yes) enzymes (
ec:*) that don't have a cofactor (
NOT cofactor:(chebi:*)) and don't catalyze reactions with ATP (
NOT annotation:(type:"catalytic activity" atp)).