Re: [PyMOL] Help ASPB

[David G. <dd...@uc...>]


Dear Clarisa, 


> On Sep 10, 2020, at 2:56 AM, Clarisa Alvarez <cla...@gm...> wrote:
> 
> Dear David
> Thank you very much!you do not know how much you helped me!!Thanks!
> I have two questions:



> - with you sent I only saw lateral chains, how could I see backbone?

You want to click on “H” button and hide all.
Then click on “S” ribbons to see backbone atoms.

> - I might have missed the amino acid grouping, I do not understand.

The group refer to acid and base and non-charge groups that play factor in generating the electrostatic potential. 
I am just curious have you tried this type of simple model: q1q2/4*Pier^2


Best Regards,
David 


> Thank you again!
> Have a good day.
> Clarisa.
> 
> El mié., 9 sept. 2020 a las 19:11, David Gae (<dd...@uc... <mailto:dd...@uc...>>) escribió:
> 
> select pos,(resn arg+lys+his)
> show sticks, (pos and !name c+n+o)
> color marine,pos
> disable pos
> select neg,(resn glu+asp)
> show sticks, (neg and !name c+n+o)
> color red,neg
> disable neg
> select neutral, (resn gly+ala+val+ile+leu+met+ser+cys+trp+phe+tyr+pro+gln+asn+phe)
> show sticks, (neutral and !name c+n+o)
> color yellow, neutral
> 
> I might have missed the amino acid grouping, I hope you check it before you use it.  
> Hope this helps,
> 
> 
> 
>> On Sep 9, 2020, at 4:28 AM, Clarisa Alvarez <cla...@gm... <mailto:cla...@gm...>> wrote:
>> 
>> GenScript
>> Dear all, Thanks in advance.
>> I have this problem, I have two pockets with electrostatic potential made by APSB, does anyone know how I could tell which residue contributes to each potential in each protein?
>> Thanks in advance.
>> Regards,
>> Clarisa.
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