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Is there any source to find amino acid composition of different bacteria species?

I have some bacteria species and want to find their amino acid composition statistics. I am wondering is there any online source that already calculated and published it or I should do that by myself?

genome gene amino acid composition

4 answers

Amino Acid Composition is a very broad term. To some it means tRNA/codon usage, which is usually best answered with a specific assay.

There's also bioinformaticy-ways to get an estimate of codon usage using the sequenced genome, counting 3mers either for the whole genome, or anchored on the first base of genes with non-overlapping 3mers. But remember this isn't really the same as codon usage as the amount of transcription of each gene is not taken into account. A "weird" gene with "weird" codons that is rarely transcribed would get as much weighting in such a table as a constitutively expressed housekeeping gene.

A long long time ago, I used to get my codon usage tables from http://www.kazusa.or.jp/codon/, which i presume is still relevant. But if you are just looking for a dataset where you can ask "how much of X is there in this organism" where X is some arbitrary fragment of DNA, then the only tool I know that can make use such a dataset is ACGTrie which I wrote and no one uses (not even me), so good luck with that :)

The protein content of a given bacterial cell varies substantially with environmental conditions and cell life cycle (whether it is dividing or not). Accordingly its AA composition varies. You can measure the AA composition of a bacterial culture grown under certain conditions, but you cannot calculate it. Maybe you mean codon usage in the genome?

You can use predictprotein.org.

Where your can see your species of interest amino acid composition.

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