Hi,
In GUI, [Color]-[spectrum]-[rainbow].
From command line,
util.chainbow("name")
Best regards,
Takanori Nakane
On 2014-10-14 13:55, sunyeping wrote:
> Dear pymol user,
>
> Could you tell me how to color a polypeptide continuously from N- to
> C-terminal by continuous spectrum such as red
Hi,
Try the following in PyMOL's command prompt.
from glob import glob
for file in glob("path/to/data/*.mol2"): cmd.load(file)
Takanori Nakane
On 2014-09-10 11:10, ashika torikora wrote:
> I don't think I understand what glob does or how to use it.
>
> 2014-09
Hi,
> I tried writing a macro where I woul use load *.mol2 but that doesn't
> work either.
You can use glob in Python. An example is in the
"User Comments/Examples" section of
http://www.pymolwiki.org/index.php/Load .
Best regards,
Takanori Nakane
On 2014-09-10 08:56, ashika torikora wrote:
>
Hi,
If the linear arrangement is defined as 'biological assembly'
in the PDB file, you can use "Biological Unit" script in
http://www.pymolwiki.org/index.php/BiologicalUnit
to quickly generate it.
Best regards,
Takanori Nakane
On 2014-08-27 11:57, Spencer Bliven wrote:
> Sometimes it is easier
Hi,
Unfortunately, no.
PyMOL simply skips these lines and does not store
them in memory.
Best regards,
Takanori Nakane
On 2014-05-27 21:20, Lesburg, Charles wrote:
> Hi PyMOLers,
>
> Does anyone know if it's possible to access the REMARK (and other non
> ATOM/HETATM) lines of a PDB file *afte
Hi,
And you can use get_raw_distances script at
http://www.pymolwiki.org/index.php/Get_raw_distances
to get detailed information about contacts.
Best regards,
Takanori Nakane
On 2014-05-27 15:24, Sampson, Jared wrote:
> Hi Merlin -
>
> Try limiting the distances shown to those between atoms in
Dear Thomas,
Thank you very much for your investigation.
I agree with you. PyMOL is doing right;
SCALEn should be the identity matrix, or CRYST1 expanded.
CRYST1 is defined to be "1 1 1 90 90 90" for
structures determined by non-crystallographic methods.
Thanks to the increased resolution of cry
Hi,
This is because PyMOL does not read SSBOND records
in PDB files. Actually, PyMOL determines if a bond
is present based on atomic distances and CONECT records.
http://www.pymolwiki.org/index.php/Connect_mode
PyMOL does not write SSBOND records when saving a
PDB file.
Best regards,
Takanori N
Hi,
The actual implementation in C is at layer1/Ray.c .
Best regards,
Takanori Nakane
On 2014-05-12 14:17, Riccardo wrote:
> Hello to the PyMOL mailing list.
>
> I'm searching for the place where the "get_vrml()" function (which
> seems to be involved to export a wrl file) has been defined, in
