ptm (version 0.2.2)

p.scan: Scan a Protein in Search of Phosphosites

Description

Scans the indicated protein in search of phosphosites.

Usage

p.scan(up_id, db = 'all')

Arguments

up_id

a character string corresponding to the UniProt ID.

db

the database where to search. It should be one among 'PSP', 'dbPTM','dbPAF', 'PhosPhAt', 'Phospho.ELM', 'all'.

Value

Returns a dataframe where each row corresponds to a phosphorylatable residue.

Details

If db = 'all' has been selected, it may happen that the same residue appears in several rows if it is present in different databases.

References

Hornbeck et al. Nucleic Acids Res. 2019 47:D433-D441, (PMID: 30445427).

Huang et al. Nucleic Acids Res. 2019 47:D298-D308, (PMID: 30418626).

Ullah et al. Sci. Rep. 2016 6:23534, (PMID: 27010073).

Durek et al. Nucleic Acids Res.2010 38:D828-D834, (PMID: 19880383).

Dinkel et al. Nucleic Acids Res. 2011 39:D261-D567 (PMID: 21062810).

See Also

meto.scan(), ac.scan(), me.scan(), ub.scan(), su.scan(), gl.scan(), sni.scan(), ni.scan(), ptm.scan(), reg.scan(), dis.scan()

Examples

# NOT RUN {
p.scan('P01009', db = 'PSP')
# }