| saro.motif {ptm} | R Documentation |
Search for S-Aromatic Motifs
Description
Searches for S-aromatic motifs in proteins.
Usage
saro.motif(pdb, threshold = 7, onlySaro = TRUE)
Arguments
pdb |
either the path to the PDB file of interest or the 4-letters identifier. |
threshold |
distance in ångströms, between the S atom and the aromatic ring centroid, used as threshold. |
onlySaro |
logical, if FALSE the output includes information about Met residues that are not involved in S-aromatic motifs. |
Details
For each methionyl residue taking place in a S-aromatic motif, this function computes the aromatic residues involved, the distance between the delta sulfur and the aromatic ring's centroid, as well as the angle between the sulfur-aromatic vector and the normal vector of the plane containing the aromatic ring.
Value
The function returns a dataframe reporting the S-aromatic motifs found for the protein of interest.
Author(s)
Juan Carlos Aledo
References
Reid, Lindley & Thornton, FEBS Lett. 1985, 190, 209-213.
See Also
saro.dist(), saro.geometry()
Examples
## Not run: saro.motif('1CLL')