Re: [ccp4bb] Software to know the common folds in a protein

[Markus Wiederstein]

Hi Vikram,

the TopSearch service (https://topsearch.services.came.sbg.ac.at) might also be 
of help to you.

Best,
-Markus


On Don, 13 Okt 2016, Vikram Dalal wrote:

> Hi everyone,
> 
> We are solving a protein structure and we want to know the folds which are
> present in it. Suggest me the best software or server which can be used to
> find the common folds in my protein.
> 
> 
> 
> 
> Thanks & Regards,

Re: [ccp4bb] Examples of multiple ASU copies with different conformations

[Markus Wiederstein]

Hi Shane,

another curious case is the crystal structure of a signal receiver domain of 
Desulfovibrio desulfuricans (PDB code: 3cg0, Patskovsky et al., to be 
published), as discussed in Sippl (2009) Curr. Opin. Struct. Biol.

Best,
-Markus

 Hi ccp4bb,
 
 I'm putting together a talk for some peers that highlights strengths and 
 weaknesses of structural models for the outsider. For one point, I'd like to 
 find some examples of proteins that show very different conformations between 
 different copies in the ASU. One example I know of is c-Abl (1OPL), which 
 crystallizes with both autoinhibited and active forms in the ASU, with 
 dramatically different domain organization. I'd like to find some additional 
 examples - can anyone suggest some other structures that have multiple copies 
 with large structural variations?
 
 Thanks in advance!
 
 Shane Caldwell
 McGill University