Re: [ccp4bb] How to show the ligand in my protein as sticks....???

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: How to show the ligand in my protein as sticks....???
From: Jason Vertrees jason {- dot -} vertrees {- at -} SCHRODINGER {- dot -} COM
Date: 2010-04-12

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Subject: Re: How to show the ligand in my protein as sticks....???
From: Hussain Bhukyagps hsngps {- at -} YAHOO {- dot -} COM
Date: 2010-04-12

Subject: Re: How to show the ligand in my protein as sticks....???
From: Hussain Bhukyagps hsngps {- at -} YAHOO {- dot -} COM
Date: 2010-04-12

--- On Mon, 12/4/10, Jason Vertrees wrote:

From: Jason Vertrees
Subject: Re: [ccp4bb] How to show the ligand in my protein as sticks....???
To: "Hussain Bhukyagps"
Cc: CCP4BB@jiscmail.ac.uk
Date: Monday, 12 April, 2010, 6:33 PM

Hussain,

You can do a couple things.

(1) At the PyMOL command line type:

as sticks, organic

(2) Create an organic selection using the mouse via the object menu, A > Generate > Selection > Organic. PyMOL makes a new selection for you (if there is at least one organic small
molecule). Then, from the new selection select S > As > Sticks.

By the way, "A > Generate > Selection" means select "A" for your protein of choice, then from that menu select "Generate" then "Selection", ... and so on.

Hope this helps,

-- Jason

On Mon, Apr 12, 2010 at 2:15 PM, Hussain Bhukyagps wrote:

Dear all
i'm trying to show ligand which is in the pdb of my protein as sticks, but it is showing the folowing message in the pymol Tcl/Tk GUI.

You clicked /1204//X/TL1`0/C10
Selector: selection "sele" defined with 45 atoms.

but it not responding to that command.
can any one help..??

thank you.

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--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC

(e) Jason.Vertrees@schrodinger.com
(o) +1 (603) 374-7120

Dear Jason Vertrees,

my ligand is a metal complex. I followed the way you suggested me, but still i'm not able solve it.
by the way i generated new selection but it is not working for lines and sticks. it is working with spheres and dots and also nb_spheres etc..

thank you

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CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: How to show the ligand in my protein as sticks....???
From: Jason Vertrees jason {- dot -} vertrees {- at -} SCHRODINGER {- dot -} COM
Date: 2010-04-12

Next message:
Subject: Re: How to show the ligand in my protein as sticks....???
From: Hussain Bhukyagps hsngps {- at -} YAHOO {- dot -} COM
Date: 2010-04-12