Question: fasta sequences for chemical compound
0
gravatar for mittu1602
2.8 years ago by
mittu1602170
India
mittu1602170 wrote:

How can I get fasta sequence of a chemical compound? I have compound ids like "SMILES, Metacyc, InChl"

Thank you.

sequence gene fasta • 723 views
ADD COMMENTlink written 2.8 years ago by mittu1602170

As far as I know there is no sensible way to have a chemical compound in fasta. Are you sure that's what you mean? Fasta is used for DNA, RNA or protein.

ADD REPLYlink written 2.8 years ago by WouterDeCoster42k

The chemical compound is a part of a pathway and I want to conclude if my sequences are involved in the pathway or not! If you have any alternate suggestion please help.

ADD REPLYlink written 2.8 years ago by mittu1602170
1

I think you need more help than an online forum can offer. Do you have supervision in your institute who can support you in finding logical steps in your project?

It's unclear which data you have and what the aim is of your analysis.

ADD REPLYlink written 2.8 years ago by WouterDeCoster42k

Okay, Thank you.

ADD REPLYlink written 2.8 years ago by mittu1602170

What pathway is this? If you are looking at something like TCA cycle where the components/genes are well known then you should be able to get those easily.

You say you have sequences then logical thing to do will be a BLAST+ search at NCBI and then to see if you are able to retrieve homologies to genes known to be involved in that pathway.

ADD REPLYlink modified 2.8 years ago • written 2.8 years ago by genomax77k
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