renum: Renumerate Residue Position

In jcaledo/ptm_0.1.1: Analyses of Protein Post-Translational Modifications

Description

Renumerates residue position.

Usage

renum(up_id, pos, from, to, ...)

Arguments

up_id	the UniProt ID.
pos	position in the initial sequence.
from	origen of the initial sequence, it should be one among 'uniprot', 'metosite' and 'pdb'.
to	target sequence, it should be one among 'uniprot', 'metosite' and 'pdb'.
...	additional arguments (PDB ID and chain) when 'pdb' is either origin or destination.

Details

Either the origin sequence or the target sequence should be uniprot. Nevertheless, the conversion pdb -> metosite, for instance, can be achieved through the path: pdb -> uniprot -> metosite. If 'pdb' is selected, then the PDB ID and the involved chain must be provided, in that order.

Value

Returns the final position.

Author(s)

Juan Carlos Aledo

See Also

is.at(), aa.at(), renum.pdb(), renum.meto()

Examples

renum(up_id = 'P01009', pos = 351, from = 'metosite', to = 'uniprot')
## Not run: renum(up_id = 'P01009', pos = 60, from = 'uniprot',
                         to = 'pdb', pdb = '1ATU', chain = 'A')
## End(Not run)

jcaledo/ptm_0.1.1 documentation built on April 4, 2020, 3:48 a.m.