VMD-L Mailing List

From: Nada Afiva (nadaafiva_at_gmail.com)
Date: Sun Apr 19 2020 - 18:54:38 CDT

Thank so much Sir,
It is solved, but I do not obtain the box I mean.
When using graphic 0 line {110 118 127} {120 130 140}, i did not show the
box.
Please if you have further suggestion how to make box to assign active site.
Thank you.

Nadaafiva

Pada tanggal Sen, 20 Apr 2020 pukul 06.00 Ashar Malik <asharjm_at_gmail.com>
menulis:

> when you load your system into vmd, the main window will list a number
> against the newly loaded molecule. This number is the mol id. You have to
> use this mol id so if it is 0 (i.e. the first molecule you loaded into VMD)
> then the command should be:
>
> graphics 0 point {118 120 128}
>
>
>
>
> On Mon, Apr 20, 2020 at 6:51 AM Nada Afiva <nadaafiva_at_gmail.com> wrote:
>
>> Dear Sir,
>> Thanks.
>> But when I use command below:
>> graphics complex.pdb point {118 120 128}
>> it comment: expected integer but got "complex.pdb"
>> My system name is complex.pdb.
>> What's wrong, Sir.
>> Thank you.
>>
>> Nadaafiva
>>
>> Pada tanggal Sen, 20 Apr 2020 pukul 05.20 Ashar Malik <asharjm_at_gmail.com>
>> menulis:
>>
>>> You can draw a line using information here.
>>>
>>> https://www.ks.uiuc.edu/Research/vmd/vmd-1.9.1/ug/node128.html
>>>
>>> On Mon, Apr 20, 2020 at 6:15 AM Nada Afiva <nadaafiva_at_gmail.com> wrote:
>>>
>>>> Dear all,
>>>> I would like to assign the active site of my protein with lines forming
>>>> a cubic box using VMD.
>>>> Does anyone have a suggestion?
>>>> Thank you.
>>>>
>>>> Nadaafiva
>>>>
>>>
>>>
>>> --
>>> Best,
>>> /A
>>>
>>
>
> --
> Best,
> /A
>