ADL: is it correct?

George Tzotzos gtzotzos at mac.com
Tue Aug 7 11:55:53 PDT 2007


Select Ligand in the Display (Hide/Show) then try Keyboard control N,  
or Control R

See if this helps

George

On Aug 7, 2007, at 8:39 PM, Miguel Quiliano Meza wrote:

>
> Dear AUTODOCK community.
>  Approximately one month ago I presented a topic about problems  
> with my ligand at autodock community (where you helped me, I  
> enclose the message below) because I am newuser of autodock 4 so I  
> am a beginner.
>   Thus I have a point I would like to check ,now  I can see the  
> ligand with the receptor on my monitor but these molecules are  
> separate so I do not know if that it is correct (please tell me, is  
> it correct?) because Normally when you are preparing the ligand for  
> autodock (like exercise two- page 11 of tutorial) you choose a PDB  
> file, then the ligand is  loaded in the viewer but I was surprised  
> because ADT showed the complex ligand-receptor even before the  
> process (with tutorial files), at the first moment I did not mind  
> so I continued with all the process (apparentely autodock and auto  
> grid run) but the program could not create “file.dlg” so I would  
> like to know what is the problem or what happen.
>
>
>
> I would be very grateful if anyone could send me further  
> particulars about the problem  I look forward to hearing from you.   
> atte Miguel Quiliano
>
>
> P.D>message previous (first message)
>
>
> Dear AUTODOCK community.
>
>
>
> I am a newuser of autodock 4 and I have a strange problem, I do not
>
>  know if my problem is very common or unusual. I explained my problem
>
>  before but I think I did not do it very
>
>  well.
>
>
>
>  Normally when you are preparing the ligand for autodock (like  
> exercise
>
>  two- page 11 of tutorial) you choose a PDB file, then the ligand is
>
>  loaded in the viewer. However when I do it with my ligand (methylblue
>
>  -pdb file obtained of chemIDplus) this load apparently well that  
> means ADT
>
>  initializes all the process (Gasteiger charges, displays a summary,
>
>  etc) But the big problem is that I cant see the ligand on my  
> monitor I
>
>  clicked on DISPLAY -show/hide- molecule and nothing happens.
>
>   I do not know why...!! in my opinion maybe
>
>  the problem is the format
>
>  of pdb file (I couldnt find methylblue at protein data bank) by the
>
>  way...  I did some proofs (like for example- tutorial files-)with  
> other
>
>  molecules in order to rule out problems with the program or  
> configuration
>
>  and Autodock funtions well.
>
>   I would be very grateful if anyone could send me further particulars
>
>  about the problem with this pdb file or any place where I will can  
> find
>
>  a pdb file of methylene blue.
>
>
>
>  I look forward to hearing from you.
>
>  Miguel Quiliano
>
>
>
> ---------------------------------
>
> Sé un Mejor Amante del Cine
> ¿Quieres saber cómo? ¡Deja que otras personas te ayuden!.
> ________________________________________________
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