I noticed that my response didn't go through due to the attachment being to
big. The PDB file is here:
https://dl.dropboxusercontent.com/u/41995424/4BVNAa-2Z73Aa.pdb
-Spencer
On Thu, Nov 6, 2014 at 2:44 PM, Spencer Bliven sbli...@ucsd.edu wrote:
I hadn't heard about any plans to convert
Thanks for the response, David!
You can fetch biological assemblies from the PDB using `fetch PDBID,
type=pdb1` (or the PDB Loader Service plugin). This gives you the proper
oligomeric state, rather than just the asymmetric unit. However, since it
can potentially have chains from multiple
One possible reason for this behavior would be code that assumes atom IDs
are unique. In fact, both the ID and the state are required to uniquely
identify an atom. This would be consistent with some other problems I've
observed when working with multi-state objects, such as the fact that
cartoon
Hey, I've been doing a lot of work with PDB assemblies, which are
distributed as multi-state structures. I would like to be able to align
them based on individual chains from individual states. However, I haven't
been able to figure out any way to uniquely identify atoms by state.
The select
I'm a little confused by what PDB assemblies you are talking about that are
distributed as multi-state structures, but assuming they are similar to NMR
models... you can use intra_fit (
http://www.pymolwiki.org/index.php/Intra_fit )
For example, with 2kgx, we start out with chain a in state 1 and
