finding human homologues of 150 yeast proteins? - what database is useful for this? (Jan/01/2006 )
Hello, Happy New Year!
By searching the yeast genome database (http://www.yeastgenome.org/) for proteins that have a certain amino acid motif, I retrieve 150 protein sequences with various functions. I would like to find human homologues of these 150 protein sequences... but don't know how!
Is there a high throughput way to do this?
Or must I search a human database with each individual yeast protein ID number?
Would you advise going through http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Protein to find human homologues?
I'm sure this must sound basic, but I am really quite lost.
Thanks very much,
a graduate student
-biochem06-
QUOTE (biochem06 @ Jan 1 2006, 01:50 PM)
Hello, Happy New Year!
By searching the yeast genome database (http://www.yeastgenome.org/) for proteins that have a certain amino acid motif, I retrieve 150 protein sequences with various functions. I would like to find human homologues of these 150 protein sequences... but don't know how!
Is there a high throughput way to do this?
Or must I search a human database with each individual yeast protein ID number?
Would you advise going through http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Protein to find human homologues?
I'm sure this must sound basic, but I am really quite lost.
Thanks very much,
a graduate student
By searching the yeast genome database (http://www.yeastgenome.org/) for proteins that have a certain amino acid motif, I retrieve 150 protein sequences with various functions. I would like to find human homologues of these 150 protein sequences... but don't know how!
Is there a high throughput way to do this?
Or must I search a human database with each individual yeast protein ID number?
Would you advise going through http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Protein to find human homologues?
I'm sure this must sound basic, but I am really quite lost.
Thanks very much,
a graduate student

Hello.
Perhaps a potential way is to have a look through the www.ensembl.org database. I think this database has a number of organisms including yeast (pombe and cerevisiae). Given that the NCBI numbers are included in the ensembl records you may have luck pulling homologs from the ensembl records.
I say this but don't actually know how the NCBI go about indexung all this kind of stuff... I assume they have extensive records but I don't use their stuff that often so there may be a far simpler way.
-DPK-