Fetch UniProt Entry Data.

Usage

uniprot(accid)

Arguments

accid
UniProt accession id.

Description

Fetch protein sequence and functional information from the UniProt database.

Details

This is a basic utility function for downloading information from the UniProt database. UniProt contains protein sequence and functional information.

Value

Returns a list object with the following components:
accession
a character vector with UniProt accession id's.

name
abbreviated name.

fullName
full recommended protein name.

shortName
short protein name.

sequence
protein sequence.

gene
gene names.

organism
organism.

taxon
taxonomic lineage.

References

Grant, B.J. et al. (2006) Bioinformatics 22, 2695--2696.

See also the UniProt web-site for more information: http://www.uniprot.org/.

Examples

# UNIPROT server connection required - testing excluded

prot <- uniprot('PH4H_HUMAN')
prot$fullName



[1] "Phenylalanine-4-hydroxylase"



prot$sequence



[1] "MSTAVLENPGLGRKLSDFGQETSYIEDNCNQNGAISLIFSLKEEVGALAKVLRLFEENDVNLTHIESRPSRLKKDEYEFFTHLDKRSLPALTNIIKILRHDIGATVHELSRDKKKDTVPWFPRTIQELDRFANQILSYGAELDADHPGFKDPVYRARRKQFADIAYNYRHGQPIPRVEYMEEEKKTWGTVFKTLKSLYKTHACYEYNHIFPLLEKYCGFHEDNIPQLEDVSQFLQTCTGFRLRPVAGLLSSRDFLGGLAFRVFHCTQYIRHGSKPMYTPEPDICHELLGHVPLFSDRSFAQFSQEIGLASLGAPDEYIEKLATIYWFTVEFGLCKQGDSIKAYGAGLLSSFGELQYCLSEKPKLLPLELEKTAIQNYTVTEFQPLYYVAESFNDAKEKVRNFAATIPRPFSVRYDPYTQRIEVLDNTQQLKILADSINSEIGILCSALQKIK"

See also

blast.pdb, get.seq

Author

Lars Skjaerven