Q:
I am working with conformational change in protein structure. I would like to do some
research using your molmovdb (Domain motion) database, however I check
the website and it doesn’t work. How could I get access to the Molmov
database?

I mean when I tried to check the molecular movements database at this address

http://www.molmovdb.org/cgi-bin/browse.cgi

I got error msg when i opened morph button:

"Your request could not be processed. The following error was detected:
Morph va1cbuB-1c9kB not found in database.
Please email protmot if you think this message was caused by a server error.

Last year, we developed a probabilistic model for detecting rigid domains.

https://academic.oup.com/bioinformatics/article-lookup/doi/10.1093/bioinformatics/btw442

We use Dyndom database for benchmarking which contain a lot of redundancies. I am looking for alternative database for benchmarking our methods.

A:
Would you mind sending me the PDB files you submitted, as well as you job ID, and we’ll investigate. In the meantime, we’ve compiled a list of related resources that may be of interest:

http://www2.molmovdb.org/wiki/info/index.php/Related_Resources

Also — what do you mean when you say it does not work?

it no longer sends out acknowledgement emails. However save the morph ID and come back later (sometimes as long as a day later) to check on it.

You can also use my macromoleculebuilder (MMB) software. It’s good if you have a very large complex undergoing a large scale conformational change.