[Chimera-users] missing ribbon loop

[Elaine Meng]

Hi Tomas,
I don't see any missing ribbon loop when I look at the structure.  I  
see one continuous protein ribbon for residues 56-195 of chain A.   
There is also a short peptide, residues 10-14 of chain Q.   However,  
chains A and Q are separate molecules so they should not be connected,  
if that is what you meant.

The only weird things I can see in the display are
- Glu 89 in chain A is broken into two parts because it does not have  
a CG atom
- Asn 185 in chain A is broken into two parts because it does not have  
a CB atom

However, neither of these things affects the ribbon because all of the  
backbone atoms are there.  Maybe you are seeing the sidechain pieces  
of these two residues?

I looked at the structure in both the current 1.4 release candidate  
and the current 1.5 daily builds of Chimera.
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco


On Dec 2, 2009, at 3:38 AM, klumpler at sci.muni.cz wrote:

> Dear Elaine,
> I think PDB is alright, I send it as a attachment. Could you help me  
> with
> the editing?
> Thank you very much
> Tomas