Re: [PyMOL] DNA ligand presentation in PyMOL

[Thomas Holder]

Hi Amna,

 DNA molecule has internal HBONDS too.. how can i see the hbonds made
 between just ligand and DNA, ???

If there is nothing else than DNA and ligand, this should probably work
(otherwise, be more precise with the selections...):

PyMOL distance hbonds, (polymer), (organic), mode=2

 how can i show just  interacting residues of  DNA with ligand
 i am unable to create this presentation..

PyMOL show sticks, (polymer) within 5 of (organic)

Again, if polymer and organic are ambiguous, replace them with more
explicit selections like (chain A and resi 34).

http://pymolwiki.org/index.php/Single-word_Selectors
http://pymolwiki.org/index.php/Selection_Algebra
http://pymolwiki.org/index.php/Property_Selectors

Cheers,
  Thomas

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Thomas Holder
PyMOL Developer
Schrödinger Contractor

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[PyMOL] DNA ligand presentation in PyMOL

[amna khan]

Hi,

I have a model of DNA-Ligand, defualt both ligand and DNA are represented
as sticks i make DNA as cartoon and ligand as stick, this is general
presentation 

DNA molecule has internal HBONDS too.. how can i see the hbonds made
between just ligand and DNA, ???

how can i show just  interacting residues of  DNA with ligand
i am unable to create this presentation..

Thanku

regards
amna khan
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