On Thursday, February 15, 2018 3:16:50 PM PST Nicola Evans wrote:
> I have recently solved a novel structure which previously did not have any structural homologues (as related by sequence identity). I was wondering if anyone could recommend a 3D structural search engine? I used the Dali server which has been recommended to me in the past (and with past success) but the top few hits this time aren't similar structurally (although I haven't exhausted the list yet). I just want to confirm if the folds are truly novel or not.
Dali is sensitive to the order of secondary structure elements.
This is relevant if you are looking for evolutionary relatedness, but
not if you just want to ask "does it look like this".
For the latter question, I suggest the VAST server at NCBI.
https://www.ncbi.nlm.nih.gov/Structure/VAST/vast.shtml
Ethan
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Ethan A Merritt
Biomolecular Structure Center, K-428 Health Sciences Bldg
MS 357742, University of Washington, Seattle 98195-7742
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