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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: deshpande m. Nucleic Acids Res. 2020 Jan 8;48(D1):D335-D343. doi: 10.1093/nar/gkz990. Nucleic Acids Res. 2020. PMID: 31691821 Free PMC article.
PDBe: improved accessibility of macromolecular structure data from PDB and EMDB.
Velankar S, van Ginkel G, Alhroub Y, Battle GM, Berrisford JM, Conroy MJ, Dana JM, Gore SP, Gutmanas A, Haslam P, Hendrickx PM, Lagerstedt I, Mir S, Fernandez Montecelo MA, Mukhopadhyay A, Oldfield TJ, Patwardhan A, Sanz-García E, Sen S, Slowley RA, Wainwright ME, Deshpande MS, Iudin A, Sahni G, Salavert Torres J, Hirshberg M, Mak L, Nadzirin N, Armstrong DR, Clark AR, Smart OS, Korir PK, Kleywegt GJ. Velankar S, et al. Among authors: deshpande ms. Nucleic Acids Res. 2016 Jan 4;44(D1):D385-95. doi: 10.1093/nar/gkv1047. Epub 2015 Oct 17. Nucleic Acids Res. 2016. PMID: 26476444 Free PMC article.
PDBe: towards reusable data delivery infrastructure at protein data bank in Europe.
Mir S, Alhroub Y, Anyango S, Armstrong DR, Berrisford JM, Clark AR, Conroy MJ, Dana JM, Deshpande M, Gupta D, Gutmanas A, Haslam P, Mak L, Mukhopadhyay A, Nadzirin N, Paysan-Lafosse T, Sehnal D, Sen S, Smart OS, Varadi M, Kleywegt GJ, Velankar S. Mir S, et al. Among authors: deshpande m. Nucleic Acids Res. 2018 Jan 4;46(D1):D486-D492. doi: 10.1093/nar/gkx1070. Nucleic Acids Res. 2018. PMID: 29126160 Free PMC article.
New restraints and validation approaches for nucleic acid structures in PDB-REDO.
de Vries I, Kwakman T, Lu XJ, Hekkelman ML, Deshpande M, Velankar S, Perrakis A, Joosten RP. de Vries I, et al. Among authors: deshpande m. Acta Crystallogr D Struct Biol. 2021 Sep 1;77(Pt 9):1127-1141. doi: 10.1107/S2059798321007610. Epub 2021 Aug 24. Acta Crystallogr D Struct Biol. 2021. PMID: 34473084 Free PMC article.
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models.
Varadi M, Anyango S, Deshpande M, Nair S, Natassia C, Yordanova G, Yuan D, Stroe O, Wood G, Laydon A, Žídek A, Green T, Tunyasuvunakool K, Petersen S, Jumper J, Clancy E, Green R, Vora A, Lutfi M, Figurnov M, Cowie A, Hobbs N, Kohli P, Kleywegt G, Birney E, Hassabis D, Velankar S. Varadi M, et al. Among authors: deshpande m. Nucleic Acids Res. 2022 Jan 7;50(D1):D439-D444. doi: 10.1093/nar/gkab1061. Nucleic Acids Res. 2022. PMID: 34791371 Free PMC article.
525 results