How to get uniprot accessions from a multi protein sequence fasta file
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13 months ago
Lucas R.F. ▴ 20

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?

uniprotkb uniprot proteomics • 759 views
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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

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13 months ago

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

https://www.uniprot.org/blast

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

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download uniprot as fasta and use a local blast.

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13 months ago
Mensur Dlakic ★ 27k

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.

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