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MolProbity: More and better reference data for improved all-atom structure validation.
Protein Sci. 2018 Jan;27(1):293-315. doi: 10.1002/pro.3330. Epub 2017 Nov 27.
Protein Sci. 2018.
PMID: 29067766
Free PMC article.
Model validation: local diagnosis, correction and when to quit.
Richardson JS, Williams CJ, Hintze BJ, Chen VB, Prisant MG, Videau LL, Richardson DC.
Richardson JS, et al. Among authors: videau ll.
Acta Crystallogr D Struct Biol. 2018 Feb 1;74(Pt 2):132-142. doi: 10.1107/S2059798317009834. Epub 2018 Feb 1.
Acta Crystallogr D Struct Biol. 2018.
PMID: 29533239
Free PMC article.
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Assessment of detailed conformations suggests strategies for improving cryoEM models: Helix at lower resolution, ensembles, pre-refinement fixups, and validation at multi-residue length scale.
Richardson JS, Williams CJ, Videau LL, Chen VB, Richardson DC.
Richardson JS, et al. Among authors: videau ll.
J Struct Biol. 2018 Nov;204(2):301-312. doi: 10.1016/j.jsb.2018.08.007. Epub 2018 Aug 11.
J Struct Biol. 2018.
PMID: 30107233
Free PMC article.
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The cis-Pro touch-turn: a rare motif preferred at functional sites.
Videau LL, Arendall WB 3rd, Richardson JS.
Videau LL, et al.
Proteins. 2004 Aug 1;56(2):298-309. doi: 10.1002/prot.20101.
Proteins. 2004.
PMID: 15211513
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Broad Analysis of Vicinal Disulfides: Occurrences, Conformations with Cis or with Trans Peptides, and Functional Roles Including Sugar Binding.
Richardson JS, Videau LL, Williams CJ, Richardson DC.
Richardson JS, et al. Among authors: videau ll.
J Mol Biol. 2017 May 5;429(9):1321-1335. doi: 10.1016/j.jmb.2017.03.017. Epub 2017 Mar 20.
J Mol Biol. 2017.
PMID: 28336403
Free PMC article.
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Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix.
Liebschner D, Afonine PV, Baker ML, Bunkóczi G, Chen VB, Croll TI, Hintze B, Hung LW, Jain S, McCoy AJ, Moriarty NW, Oeffner RD, Poon BK, Prisant MG, Read RJ, Richardson JS, Richardson DC, Sammito MD, Sobolev OV, Stockwell DH, Terwilliger TC, Urzhumtsev AG, Videau LL, Williams CJ, Adams PD.
Liebschner D, et al. Among authors: videau ll.
Acta Crystallogr D Struct Biol. 2019 Oct 1;75(Pt 10):861-877. doi: 10.1107/S2059798319011471. Epub 2019 Oct 2.
Acta Crystallogr D Struct Biol. 2019.
PMID: 31588918
Free PMC article.
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