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Database of only characterized proteins

...to be used for BLAST

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3 replies to this topic

#1 rmbio

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Posted 06 September 2016 - 09:31 AM

I wish to know if the amino acid sequences of a bacterial enzyme of my interest shows any similarity with the already-characterized enzymes from other bacteria. The problem that I encounter is that most of the sequences obtained in NCBI BLAST results are uncharacterized. Is there any tool to BLAST my sequenced against the database containing only characterized proteins? CharProtDB was one such tool; but the project has been discontinued and the database not updated since many years.
 
Thanks 


#2 bob1

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Excellent

Posted 06 September 2016 - 09:53 AM

Tried https://www.expasy.org/?



#3 El Crazy Xabi

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Posted 06 September 2016 - 08:20 PM

Uniprot? The Swissprot subset only contains proteins that have been manually curated, so the highest degree of reliability you can find respect to annotated prot seqs.



#4 rmbio

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Posted 07 September 2016 - 01:17 AM

Thank you both! Will try these links :)






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