Select sites

Type	Python Script
Download	select_sites.py
Author(s)	Thomas Holder
License	BSD-2-Clause
This code has been put under version control in the project Pymol-script-repo

select_sites make named selections from SITE, LINK, SSBOND, HET records.
A super fast way to annotate the protein, according to the authors input i pdb file.

See:
http://www.wwpdb.org/procedure.html#toc_10

For instance, trypsin (http://www.rcsb.org/pdb/files/1SGT.pdb?headerOnly=YES):

SITE     1 CAT  3 HIS A  57  ASP A 102  SER A 195
SITE     1 AC1  6 ASP A 165  ALA A 177A GLU A 180  GLU A 230
SITE     2 AC1  6 HOH A 259  HOH A 261

This requires that the authors have performed annotation in the pdb file.

Usage

import select_sites
select_sites [ selection [, filename [, prefix [, nice [, quiet ]]]]]

nice = 0 or 1: make colored sticks representation for sites {default :1}

Example

fetch 1sgt, async=0
import select_sites
select_sites

Or fetch and select_sites in one go

import select_sites
sites 1sgt

See Also

• uniprot_features