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Genomic-scale prioritization of drug targets: the TDR Targets database.
Agüero F, Al-Lazikani B, Aslett M, Berriman M, Buckner FS, Campbell RK, Carmona S, Carruthers IM, Chan AW, Chen F, Crowther GJ, Doyle MA, Hertz-Fowler C, Hopkins AL, McAllister G, Nwaka S, Overington JP, Pain A, Paolini GV, Pieper U, Ralph SA, Riechers A, Roos DS, Sali A, Shanmugam D, Suzuki T, Van Voorhis WC, Verlinde CL. Agüero F, et al. Among authors: sali a. Nat Rev Drug Discov. 2008 Nov;7(11):900-7. doi: 10.1038/nrd2684. Epub 2008 Oct 17. Nat Rev Drug Discov. 2008. PMID: 18927591 Free PMC article. Review.
Derivation of rules for comparative protein modeling from a database of protein structure alignments.
Sali A, Overington JP. Sali A, et al. Protein Sci. 1994 Sep;3(9):1582-96. doi: 10.1002/pro.5560030923. Protein Sci. 1994. PMID: 7833817 Free PMC article.
We describe a database of protein structure alignments as well as methods and tools that use this database to improve comparative protein modeling. ...At present, the main application of the database is to improve comparative modeling by satisfaction of spatial restraints …
We describe a database of protein structure alignments as well as methods and tools that use this database to improve comparative pro …
Protein complex compositions predicted by structural similarity.
Davis FP, Braberg H, Shen MY, Pieper U, Sali A, Madhusudhan MS. Davis FP, et al. Among authors: sali a. Nucleic Acids Res. 2006 May 31;34(10):2943-52. doi: 10.1093/nar/gkl353. Print 2006. Nucleic Acids Res. 2006. PMID: 16738133 Free PMC article.
Comparative protein structure modeling using Modeller.
Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A. Eswar N, et al. Among authors: sali a. Curr Protoc Bioinformatics. 2006 Oct;Chapter 5:Unit-5.6. doi: 10.1002/0471250953.bi0506s15. Curr Protoc Bioinformatics. 2006. PMID: 18428767 Free PMC article.
Prediction of protease substrates using sequence and structure features.
Barkan DT, Hostetter DR, Mahrus S, Pieper U, Wells JA, Craik CS, Sali A. Barkan DT, et al. Among authors: sali a. Bioinformatics. 2010 Jul 15;26(14):1714-22. doi: 10.1093/bioinformatics/btq267. Epub 2010 May 26. Bioinformatics. 2010. PMID: 20505003 Free PMC article.
SALIGN: a web server for alignment of multiple protein sequences and structures.
Braberg H, Webb BM, Tjioe E, Pieper U, Sali A, Madhusudhan MS. Braberg H, et al. Among authors: sali a. Bioinformatics. 2012 Aug 1;28(15):2072-3. doi: 10.1093/bioinformatics/bts302. Epub 2012 May 21. Bioinformatics. 2012. PMID: 22618536 Free PMC article.
The web server automatically determines the best alignment procedure based on the inputs, while allowing the user to override default parameter values. Multiple alignments are guided by a dendrogram computed from a matrix of all pairwise alignment scores. When align …
The web server automatically determines the best alignment procedure based on the inputs, while allowing the user to override default parame …
645 results