Split chains

From PyMOLWiki
Jump to: navigation, search

Included in psico
This command or function is available from psico, which is a PyMOL extension.

Module psico.editing

split_chains is a script that creates for each chain in selection its own object.

This is a core command since PyMOL 1.6.0.0

Contents

Usage

split_chains [ selection [, prefix ]]

Example

fetch 2yko 2ykp 2ykq, async=0
split_chains
delete 2yko 2ykp 2ykq
alignto 2yko_A

The Script

from pymol import cmd, CmdException
 
def split_chains(selection='(all)', prefix=None):
    '''
DESCRIPTION
 
    Create a single object for each chain in selection
 
SEE ALSO
 
    split_states, http://pymolwiki.org/index.php/Split_object
    '''
    count = 0
    models = cmd.get_object_list('(' + selection + ')')
    for model in models:
        for chain in cmd.get_chains('(%s) and model %s' % (selection, model)):
            if chain == '':
                chain = "''"
            count += 1
            if not prefix:
                name = '%s_%s' % (model, chain)
            else:
                name = '%s%04d' % (prefix, count)
            cmd.create(name, '(%s) and model %s and chain %s' % (selection, model, chain))
        cmd.disable(model)
 
cmd.extend('split_chains', split_chains)

See Also

Personal tools
Namespaces
Variants
Actions
Navigation
Toolbox