Read the Chimera manual? Ask the Chimera group?
On 12/11/17 3:00 AM, Rana Rehan Khalid wrote:
> Dear AMber users
>
> I follow the mcpb tutorial of heme metal containing protein. After that ran
> the system for minimization and i got the .rst file then i use
>
> ambpdb -p b-h.prmtop -c min.rst > pdbauto.pdb
>
> to observe my system pdb in chimera visualization tool. Then I see That
> chimera show only two bond one fe------NO and other fe------NA (porphyrin
> nitrogen). It does not show the rest 3 porphyrin bond with FE and one
> FE------HIS.
> Is there anything wrong. Yes i know the bond information in the prmtop
> file. And I can see bond after loading prmtop. But why chimera detect the
> only 2 bond.
> I also uploaded the image of system.
> Kindly guide
>
> Thanks for yours Attentions.
>
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Mon Dec 11 2017 - 03:30:03 PST
