How to get uniprot accessions from a multi protein sequence fasta file

Question

[Lucas R.F.]

I have a list of proteins with amino acids in fasta format. I need to get the uniprotKB accessions for each protein. How would I go about getting these?

[GenoMax]

Do you have any accession numbers or are these just plain sequences with no identifiers?

If you have some identifiers then you could simply use UniProt ID converter tool: https://www.uniprot.org/id-mapping

Answer 1

[Pierre Lindenbaum]

Find a protein sequence to run BLAST sequence similarity search by UniProt ID

https://www.uniprot.org/blast

[Lucas R.F.]

The limit is 20 sequences whereas I have around 2,000.

[Pierre Lindenbaum]

download uniprot as fasta and use a local blast.

Answer 2

[Mensur Dlakic]

If these sequences are from the same organism, you may get away with downloading just the proteome of that particular species and then doing local BLAST.

• https://www.uniprot.org/taxonomy?facets=taxonomies_with%3A5_proteome&query=%2A
• https://www.uniprot.org/taxonomy?query=*