Also,
TopSearch https://topsearch.services.came.sbg.ac.at/ CAME - TopSearch :: Structure Search<https://topsearch.services.came.sbg.ac.at/> topsearch.services.came.sbg.ac.at Sequence Analysis Highlight identical residues Jmol Mode HTML5 Java. Cite TopSearch © Dave ========== Dr David C Briggs Hohenester Lab Department of Life Sciences Imperial College London UK http://about.me/david_briggs ________________________________ From: CCP4 bulletin board <[email protected]> on behalf of Daniel Rigden <[email protected]> Sent: 16 February 2018 08:29:29 To: [email protected] Subject: Re: [ccp4bb] 3D Structure Search Another topology-independent method is CLICK, available as a server here http://cospi.iiserpune.ac.in/click/ You might also want to try FATCAT which considers potential flexibility of separate subdomains in its structural alignment http://fatcat.burnham.org/fatcat-cgi/cgi/fatcat.pl?-func=search Dan On 15/02/18 23:25, Ethan A Merritt wrote: > 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 > -- Dr Daniel John Rigden Tel:(+44) 151 795 4467 Institute of Integrative Biology FAX:(+44) 151 795 4406 Room 101, Biosciences Building University of Liverpool http://pcwww.liverpool.ac.uk/~drigden/ Crown St., Liverpool L69 7ZB, U.K.
