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PDBe: improved findability of macromolecular structure data in the PDB.
Armstrong DR, Berrisford JM, Conroy MJ, Gutmanas A, Anyango S, Choudhary P, Clark AR, Dana JM, Deshpande M, Dunlop R, Gane P, Gáborová R, Gupta D, Haslam P, Koča J, Mak L, Mir S, Mukhopadhyay A, Nadzirin N, Nair S, Paysan-Lafosse T, Pravda L, Sehnal D, Salih O, Smart O, Tolchard J, Varadi M, Svobodova-Vařeková R, Zaki H, Kleywegt GJ, Velankar S. Armstrong DR, et al. Among authors: svobodova varekova r. Nucleic Acids Res. 2020 Jan 8;48(D1):D335-D343. doi: 10.1093/nar/gkz990. Nucleic Acids Res. 2020. PMID: 31691821 Free PMC article.
Worldwide Protein Data Bank validation information: usage and trends.
Smart OS, Horský V, Gore S, Svobodová Vařeková R, Bendová V, Kleywegt GJ, Velankar S. Smart OS, et al. Among authors: svobodova varekova r. Acta Crystallogr D Struct Biol. 2018 Mar 1;74(Pt 3):237-244. doi: 10.1107/S2059798318003303. Epub 2018 Mar 2. Acta Crystallogr D Struct Biol. 2018. PMID: 29533231 Free PMC article.
ChannelsDB: database of biomacromolecular tunnels and pores.
Pravda L, Sehnal D, Svobodová Vareková R, Navrátilová V, Toušek D, Berka K, Otyepka M, Koca J. Pravda L, et al. Among authors: svobodova varekova r. Nucleic Acids Res. 2018 Jan 4;46(D1):D399-D405. doi: 10.1093/nar/gkx868. Nucleic Acids Res. 2018. PMID: 29036719 Free PMC article.
Validation of ligands in macromolecular structures determined by X-ray crystallography.
Smart OS, Horský V, Gore S, Svobodová Vařeková R, Bendová V, Kleywegt GJ, Velankar S. Smart OS, et al. Among authors: svobodova varekova r. Acta Crystallogr D Struct Biol. 2018 Mar 1;74(Pt 3):228-236. doi: 10.1107/S2059798318002541. Epub 2018 Mar 2. Acta Crystallogr D Struct Biol. 2018. PMID: 29533230 Free PMC article.
Anatomy of enzyme channels.
Pravda L, Berka K, Svobodová Vařeková R, Sehnal D, Banáš P, Laskowski RA, Koča J, Otyepka M. Pravda L, et al. BMC Bioinformatics. 2014 Nov 18;15(1):379. doi: 10.1186/s12859-014-0379-x. BMC Bioinformatics. 2014. PMID: 25403510 Free PMC article.
MOLEonline 2.0: interactive web-based analysis of biomacromolecular channels.
Berka K, Hanák O, Sehnal D, Banás P, Navrátilová V, Jaiswal D, Ionescu CM, Svobodová Vareková R, Koca J, Otyepka M. Berka K, et al. Nucleic Acids Res. 2012 Jul;40(Web Server issue):W222-7. doi: 10.1093/nar/gks363. Epub 2012 May 2. Nucleic Acids Res. 2012. PMID: 22553366 Free PMC article.
22 results