Uniprot has changed search syntax

choderalab / ensembler

Automated omics-scale protein modeling and simulation setup.

http://ensembler.readthedocs.io/

GNU General Public License v2.0

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Open steven-albanese opened 7 years ago

steven-albanese commented 7 years ago

Uniprot has changed their query syntax and removed the ability to search using the domain field. Here is the current documentation

It looks like this is the best way to search for all reviewed human kinases:

annotation:(type:"positional domain" "protein kinase") AND taxonomy:"Homo sapiens (Human) [9606]" AND reviewed:yes

This shouldn't be a big deal for ensembler, but we will need to change the documentation, as some of the examples contain the outdated search terms

ABChh26 commented 3 years ago

Hi,I want to query from PDB.Could please teach me how to edit the climmand with a example?Thank you very much!