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using uniprot

Everything on bioinformatics, the science of information technology as applied to biological research.

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using uniprot

Postby protchem12 » Fri Jan 27, 2012 4:58 pm

Hello, I am new to bioinformatics and I dont understand what is probably a basic thing about proteins and searching. I dont understand why when I search for something like 'human lysozyme' i wind up with almost 10 different answers, many of which say things like 'lysozyme-like protein'. or lysozyme-g like, or something. what are these different ones, are they all lysozyme? If i was asked to find the sequence of 'human lysozyme', how do i know which one to pick?
Thanks!!
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Re: using uniprot

Postby protchem12 » Fri Jan 27, 2012 5:13 pm

also a similar issue- i have been asked to align human alpha-hemoglobin and human beta-hemoglobin. how do i know if they are talking about the alpha and beta subunits, or there are other entries that just say "alpha-hemoglobin"?
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Postby JackBean » Fri Jan 27, 2012 7:05 pm

this protein-like is usually for genes annotated in silico without confirmation of the function in vitro
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
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Postby jmagicking » Fri Apr 06, 2012 7:36 am

when getting the answers, you should check it one by one

for example:you use the key works " human lysozyme AND organism:"Homo sapiens" "
to search on uniprot(http://www.uniprot.org)
you will get all 32 results.

you can see "Q7Z4W2" is from "Molecular cloning and characterization of three novel lysozyme-like genes, predominantly expressed in the male reproductive system of humans, belonging to the c-type lysozyme/alpha-lactalbumin family"(reference), so it is a true lysozyme
also, you can see this result " P61626 " is from " Cloning of human lysozyme gene and expression in the yeast Saccharomyces cerevisiae." (reference) it is what you want to find.

maybe in human genome it have many lysozyme gene , the result is not only one
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