Hello all,
I would like to ask if someone know some user-friendly tool which is able to predict and visualize domains in my protein alignment. I have long protein alignment (over 1000 aa) and I want to create something like this (please see figures bellow) for publication. I know PFAM or SMART tools, but unfortunately they support only single amino acid sequence query, not multiple queries or alignment....
Many thanks for all suggestions
Martin
Have you tried COBALT?
https://www.ncbi.nlm.nih.gov/tools/cobalt/cobalt.cgi
Not as bright colors as your figure, though.
https://www.researchgate.net/deref/https%3A%2F%2Fwww.ncbi.nlm.nih.gov%2Ftools%2Fcobalt%2Fcobalt.cgi
PANDA: Protein Function Prediction Using Domain Architecture and Affinity Propagation on the Gene Ontology Graph
http://dna.cs.miami.edu/PANDA/
https://www.nature.com/articles/s41598-018-21849-1
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