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Kortemme T, Joachimiak LA, Bullock AN, Schuler AD, Stoddard BL, Baker D. Computational redesign of protein-protein interaction specificity. Nat Struct Mol Biol. 2004 Apr;11(4):371-9. doi: 10.1038/nsmb749. Epub 2004 Mar 21. PubMed PMID: 15034550.
Nair BM, Joachimiak LA, Chattopadhyay S, Montano I, Burns JL. Conservation of a novel protein associated with an antibiotic efflux operon in Burkholderia cenocepacia. FEMS Microbiol Lett. 2005 Apr 15;245(2):337-44. doi: 10.1016/j.femsle.2005.03.027. PubMed PMID: 15837391.
Joachimiak LA, Kortemme T, Stoddard BL, Baker D. Computational design of a new hydrogen bond network and at least a 300-fold specificity switch at a protein-protein interface. J Mol Biol. 2006 Aug 4;361(1):195-208. doi: 10.1016/j.jmb.2006.05.022. Epub 2006 May 24. PubMed PMID: 16831445.
Keeble AH, Joachimiak LA, Maté MJ, Meenan N, Kirkpatrick N, Baker D, Kleanthous C. Experimental and computational analyses of the energetic basis for dual recognition of immunity proteins by colicin endonucleases. J Mol Biol. 2008 Jun 13;379(4):745-59. doi: 10.1016/j.jmb.2008.03.055. Epub 2008 Apr 3. PubMed PMID: 18471830.
Tam S, Spiess C, Auyeung W, Joachimiak L, Chen B, Poirier MA, Frydman J. The chaperonin TRiC blocks a huntingtin sequence element that promotes the conformational switch to aggregation. Nat Struct Mol Biol. 2009 Dec;16(12):1279-85. doi: 10.1038/nsmb.1700. Epub 2009 Nov 15. PubMed PMID: 19915590; PubMed Central PMCID: PMC2788664.
Karanicolas J, Corn JE, Chen I, Joachimiak LA, Dym O, Peck SH, Albeck S, Unger T, Hu W, Liu G, Delbecq S, Montelione GT, Spiegel CP, Liu DR, Baker D. A de novo protein binding pair by computational design and directed evolution. Mol Cell. 2011 Apr 22;42(2):250-60. doi: 10.1016/j.molcel.2011.03.010. Epub 2011 Mar 31. PubMed PMID: 21458342; PubMed Central PMCID: PMC3102007.
Zhang J, Ma B, DiMaio F, Douglas NR, Joachimiak LA, Baker D, Frydman J, Levitt M, Chiu W. Cryo-EM structure of a group II chaperonin in the prehydrolysis ATP-bound state leading to lid closure. Structure. 2011 May 11;19(5):633-9. doi: 10.1016/j.str.2011.03.005. PubMed PMID: 21565698; PubMed Central PMCID: PMC3705922.
Leitner A, Joachimiak LA, Bracher A, Mönkemeyer L, Walzthoeni T, Chen B, Pechmann S, Holmes S, Cong Y, Ma B, Ludtke S, Chiu W, Hartl FU, Aebersold R, Frydman J. The molecular architecture of the eukaryotic chaperonin TRiC/CCT. Structure. 2012 May 9;20(5):814-25. doi: 10.1016/j.str.2012.03.007. Epub 2012 Apr 12. PubMed PMID: 22503819; PubMed Central PMCID: PMC3350567.
Reissmann S, Joachimiak LA, Chen B, Meyer AS, Nguyen A, Frydman J. A gradient of ATP affinities generates an asymmetric power stroke driving the chaperonin TRIC/CCT folding cycle. Cell Rep. 2012 Oct 25;2(4):866-77. doi: 10.1016/j.celrep.2012.08.036. Epub 2012 Oct 4. PubMed PMID: 23041314; PubMed Central PMCID: PMC3543868.
Sontag EM, Joachimiak LA, Tan Z, Tomlinson A, Housman DE, Glabe CG, Potkin SG, Frydman J, Thompson LM. Exogenous delivery of chaperonin subunit fragment ApiCCT1 modulates mutant Huntingtin cellular phenotypes. Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):3077-82. doi: 10.1073/pnas.1222663110. Epub 2013 Jan 30. PubMed PMID: 23365139; PubMed Central PMCID: PMC3581981.
Leitner A, Joachimiak LA, Unverdorben P, Walzthoeni T, Frydman J, Förster F, Aebersold R. Chemical cross-linking/mass spectrometry targeting acidic residues in proteins and protein complexes. Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9455-60. doi: 10.1073/pnas.1320298111. Epub 2014 Jun 17. PubMed PMID: 24938783; PubMed Central PMCID: PMC4084482.
Joachimiak LA, Walzthoeni T, Liu CW, Aebersold R, Frydman J. The structural basis of substrate recognition by the eukaryotic chaperonin TRiC/CCT. Cell. 2014 Nov 20;159(5):1042-1055. doi: 10.1016/j.cell.2014.10.042. PubMed PMID: 25416944; PubMed Central PMCID: PMC4298165.
Walzthoeni T, Joachimiak LA, Rosenberger G, Röst HL, Malmström L, Leitner A, Frydman J, Aebersold R. xTract: software for characterizing conformational changes of protein complexes by quantitative cross-linking mass spectrometry. Nat Methods. 2015 Dec;12(12):1185-90. doi: 10.1038/nmeth.3631. Epub 2015 Oct 26. PubMed PMID: 26501516; PubMed Central PMCID: PMC4927332.
Baias M, Smith PE, Shen K, Joachimiak LA, Żerko S, Koźmiński W, Frydman J, Frydman L. Structure and Dynamics of the Huntingtin Exon-1 N-Terminus: A Solution NMR Perspective. J Am Chem Soc. 2017 Jan 25;139(3):1168-1176. doi: 10.1021/jacs.6b10893. Epub 2017 Jan 13. PubMed PMID: 28085263.
Mirbaha H, Chen D, Morazova OA, Ruff KM, Sharma AM, Liu X, Goodarzi M, Pappu RV, Colby DW, Mirzaei H, Joachimiak LA, Diamond MI. Inert and seed-competent tau monomers suggest structural origins of aggregation. Elife. 2018 Jul 10;7. doi: 10.7554/eLife.36584. PubMed PMID: 29988016; PubMed Central PMCID: PMC6039173.
Gestaut D, Limatola A, Joachimiak L, Frydman J. The ATP-powered gymnastics of TRiC/CCT: an asymmetric protein folding machine with a symmetric origin story. Curr Opin Struct Biol. 2019 Apr;55:50-58. doi: 10.1016/j.sbi.2019.03.002. Epub 2019 Apr 9. Review. PubMed PMID: 30978594; PubMed Central PMCID: PMC6776438.
Gestaut D, Roh SH, Ma B, Pintilie G, Joachimiak LA, Leitner A, Walzthoeni T, Aebersold R, Chiu W, Frydman J. The Chaperonin TRiC/CCT Associates with Prefoldin through a Conserved Electrostatic Interface Essential for Cellular Proteostasis. Cell. 2019 Apr 18;177(3):751-765.e15. doi: 10.1016/j.cell.2019.03.012. Epub 2019 Apr 4. PubMed PMID: 30955883; PubMed Central PMCID: PMC6629582.
Chen D, Drombosky KW, Hou Z, Sari L, Kashmer OM, Ryder BD, Perez VA, Woodard DR, Lin MM, Diamond MI, Joachimiak LA. Tau local structure shields an amyloid-forming motif and controls aggregation propensity. Nat Commun. 2019 Jun 7;10(1):2493. doi: 10.1038/s41467-019-10355-1. PubMed PMID: 31175300; PubMed Central PMCID: PMC6555816.
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