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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: hekkelman ml. 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.
Homology modelling and spectroscopy, a never-ending love story.
Venselaar H, Joosten RP, Vroling B, Baakman CA, Hekkelman ML, Krieger E, Vriend G. Venselaar H, et al. Among authors: hekkelman ml. Eur Biophys J. 2010 Mar;39(4):551-63. doi: 10.1007/s00249-009-0531-0. Epub 2009 Aug 29. Eur Biophys J. 2010. PMID: 19718498 Free PMC article. Review.
A series of PDB related databases for everyday needs.
Joosten RP, te Beek TA, Krieger E, Hekkelman ML, Hooft RW, Schneider R, Sander C, Vriend G. Joosten RP, et al. Among authors: hekkelman ml. Nucleic Acids Res. 2011 Jan;39(Database issue):D411-9. doi: 10.1093/nar/gkq1105. Epub 2010 Nov 11. Nucleic Acids Res. 2011. PMID: 21071423 Free PMC article.
Building and rebuilding N-glycans in protein structure models.
van Beusekom B, Wezel N, Hekkelman ML, Perrakis A, Emsley P, Joosten RP. van Beusekom B, et al. Among authors: hekkelman ml. Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):416-425. doi: 10.1107/S2059798319003875. Epub 2019 Apr 4. Acta Crystallogr D Struct Biol. 2019. PMID: 30988258 Free PMC article.
West-Life: A Virtual Research Environment for structural biology.
Morris C, Andreetto P, Banci L, Bonvin AMJJ, Chojnowski G, Cano LD, Carazo JM, Conesa P, Daenke S, Damaskos G, Giachetti A, Haley NEC, Hekkelman ML, Heuser P, Joosten RP, Kouřil D, Křenek A, Kulhánek T, Lamzin VS, Nadzirin N, Perrakis A, Rosato A, Sanderson F, Segura J, Schaarschmidt J, Sobolev E, Traldi S, Trellet ME, Velankar S, Verlato M, Winn M. Morris C, et al. Among authors: hekkelman ml. J Struct Biol X. 2019 Feb 26;1:100006. doi: 10.1016/j.yjsbx.2019.100006. eCollection 2019 Jan-Mar. J Struct Biol X. 2019. PMID: 32647812 Free PMC article.
LAHMA: structure analysis through local annotation of homology-matched amino acids.
van Beusekom B, Damaskos G, Hekkelman ML, Salgado-Polo F, Hiruma Y, Perrakis A, Joosten RP. van Beusekom B, et al. Among authors: hekkelman ml. Acta Crystallogr D Struct Biol. 2021 Jan 1;77(Pt 1):28-40. doi: 10.1107/S2059798320014473. Epub 2021 Jan 1. Acta Crystallogr D Struct Biol. 2021. PMID: 33404523 Free PMC article.
3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources.
Varadi M, Nair S, Sillitoe I, Tauriello G, Anyango S, Bienert S, Borges C, Deshpande M, Green T, Hassabis D, Hatos A, Hegedus T, Hekkelman ML, Joosten R, Jumper J, Laydon A, Molodenskiy D, Piovesan D, Salladini E, Salzberg SL, Sommer MJ, Steinegger M, Suhajda E, Svergun D, Tenorio-Ku L, Tosatto S, Tunyasuvunakool K, Waterhouse AM, Žídek A, Schwede T, Orengo C, Velankar S. Varadi M, et al. Among authors: hekkelman ml. Gigascience. 2022 Nov 30;11:giac118. doi: 10.1093/gigascience/giac118. Gigascience. 2022. PMID: 36448847 Free PMC article.
22 results