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extract GO Terms from protein FASTA

Dear all,

as a (bio)chemist I am not familiar with all the bioinformatics tools and struggle to extract all associated GO terms for each protein in my FASTA file, which I downloaded from uniprot. Should I use Blast2GO with Blast-p?

Best wishes

limmi

go fasta
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written by Limmi • Limmi

what does your fasta headers look like ?

show us the result of

grep ">" /path/to/your.fasta | head

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written by Pierre Lindenbaum Pierre Lindenbaum

Hi, the fasta headers are from uniprot, which look like this:

db|UniqueIdentifier|EntryName ProteinName OS=OrganismName OX=OrganismIdentifier [GN=GeneName ]PE=ProteinExistence SV=SequenceVersion

for example:

sp|P07101|TY3H_HUMAN Tyrosine 3-monooxygenase OS=Homo sapiens OX=9606 GN=TH PE=1 SV=5

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written by Limmi • Limmi

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