MICPRF@latvax8.lat.oz (08/21/90)
I was wondering if anyone has compiled a data base containing the motifs characteristic of particular functional domains of proteins - eg. the leucine zipper, ATP binding proteins, GTP binding sites on GTP binding proteins etc. The nearest thing I know to it is the prosite data base, which I have - but is there anything else. Would the prosite data base in combination with something like the plsearch programme be sufficient to pick up a leucine zipper in a new sequence for example? Paul Fisher (micprf@latvax8.lat.oz.au) P.S. Please post reponses to the news group as this might be of general interest.
MICPRF@latvax8.lat.oz (08/23/90)
In article <4609@latvax8.lat.oz>, MICPRF@latvax8.lat.oz writes: > I was wondering if anyone has compiled a data base containing the > motifs characteristic of particular functional domains of proteins - > eg. the leucine zipper, ATP binding proteins, GTP binding sites on > GTP binding proteins etc. The nearest thing I know to it is the prosite > data base, which I have - but is there anything else. Would the prosite > data base in combination with something like the plsearch programme be > sufficient to pick up a leucine zipper in a new sequence for example? > Paul Fisher (micprf@latvax8.lat.oz.au) > P.S. Please post reponses to the news group as this might be of general > interest. I am posting a response to my original query as I think it warrants wider dissemination: ______________________________________________________________________________ In reply to an inquiry from Paul Fisher (micprf@latvax8.lat.oz.au) concerning a Protein Sequence Motif Data Base: The NBRF PIR staff has been collecting motif data, and considering the development of the special format and software that such a data base would require in order to be useful. Unfortunately, the present very poor level of funding from the NIH, and their apparent reluctance to fund the development new databases, has prevented us from advancing beyond this planning stage. We hope that U.S. researchers will let us know of their interest in a motif database useable in conjuction with the PIR. Assessing the demand for such a database would help us choose whether to proceed with this project and determine how best to obtain funding for it. ------------------------------------------------------------------------ GARAVELLI@GUNBRF.BITNET Dr. John S. Garavelli Database Coordinator Protein Identification Resource National Biomedical Research Foundation Washington, DC 20007