Kortemme T - Search Results

1

Systems-level effects of allosteric perturbations to a model molecular switch.

Perica T, Mathy CJP, Xu J, Jang GΜ, Zhang Y, Kaake R, Ollikainen N, Braberg H, Swaney DL, Lambright DG, Kelly MJS, Krogan NJ, Kortemme T. Perica T, et al. Among authors: kortemme t. Nature. 2021 Nov;599(7883):152-157. doi: 10.1038/s41586-021-03982-6. Epub 2021 Oct 13. Nature. 2021. PMID: 34646016 Free PMC article.

2

Similarities between the spectrin SH3 domain denatured state and its folding transition state.

Kortemme T, Kelly MJ, Kay LE, Forman-Kay J, Serrano L. Kortemme T, et al. J Mol Biol. 2000 Apr 14;297(5):1217-29. doi: 10.1006/jmbi.2000.3618. J Mol Biol. 2000. PMID: 10764585

3

Global landscape of HIV-human protein complexes.

Jäger S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Li K, Hernandez H, Jang GM, Roth SL, Akiva E, Marlett J, Stephens M, D'Orso I, Fernandes J, Fahey M, Mahon C, O'Donoghue AJ, Todorovic A, Morris JH, Maltby DA, Alber T, Cagney G, Bushman FD, Young JA, Chanda SK, Sundquist WI, Kortemme T, Hernandez RD, Craik CS, Burlingame A, Sali A, Frankel AD, Krogan NJ. Jäger S, et al. Among authors: kortemme t. Nature. 2011 Dec 21;481(7381):365-70. doi: 10.1038/nature10719. Nature. 2011. PMID: 22190034 Free PMC article.

4

Design of a phosphorylatable PDZ domain with peptide-specific affinity changes.

Smith CA, Shi CA, Chroust MK, Bliska TE, Kelly MJS, Jacobson MP, Kortemme T. Smith CA, et al. Among authors: kortemme t. Structure. 2013 Jan 8;21(1):54-64. doi: 10.1016/j.str.2012.10.007. Epub 2012 Nov 15. Structure. 2013. PMID: 23159126 Free article.

5

Flexible backbone sampling methods to model and design protein alternative conformations.

Ollikainen N, Smith CA, Fraser JS, Kortemme T. Ollikainen N, et al. Among authors: kortemme t. Methods Enzymol. 2013;523:61-85. doi: 10.1016/B978-0-12-394292-0.00004-7. Methods Enzymol. 2013. PMID: 23422426 Free PMC article.

6

Computational protein design quantifies structural constraints on amino acid covariation.

Ollikainen N, Kortemme T. Ollikainen N, et al. Among authors: kortemme t. PLoS Comput Biol. 2013;9(11):e1003313. doi: 10.1371/journal.pcbi.1003313. Epub 2013 Nov 14. PLoS Comput Biol. 2013. PMID: 24244128 Free PMC article.

7

Amino-acid site variability among natural and designed proteins.

Jackson EL, Ollikainen N, Covert AW 3rd, Kortemme T, Wilke CO. Jackson EL, et al. Among authors: kortemme t. PeerJ. 2013 Nov 12;1:e211. doi: 10.7717/peerj.211. eCollection 2013. PeerJ. 2013. PMID: 24255821 Free PMC article.

8

Quantification of the transferability of a designed protein specificity switch reveals extensive epistasis in molecular recognition.

Melero C, Ollikainen N, Harwood I, Karpiak J, Kortemme T. Melero C, et al. Among authors: kortemme t. Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15426-31. doi: 10.1073/pnas.1410624111. Epub 2014 Oct 13. Proc Natl Acad Sci U S A. 2014. PMID: 25313039 Free PMC article.

9

A Web Resource for Standardized Benchmark Datasets, Metrics, and Rosetta Protocols for Macromolecular Modeling and Design.

Ó Conchúir S, Barlow KA, Pache RA, Ollikainen N, Kundert K, O'Meara MJ, Smith CA, Kortemme T. Ó Conchúir S, et al. Among authors: kortemme t. PLoS One. 2015 Sep 3;10(9):e0130433. doi: 10.1371/journal.pone.0130433. eCollection 2015. PLoS One. 2015. PMID: 26335248 Free PMC article.

10

Coupling Protein Side-Chain and Backbone Flexibility Improves the Re-design of Protein-Ligand Specificity.

Ollikainen N, de Jong RM, Kortemme T. Ollikainen N, et al. Among authors: kortemme t. PLoS Comput Biol. 2015 Sep 23;11(9):e1004335. doi: 10.1371/journal.pcbi.1004335. eCollection 2015. PLoS Comput Biol. 2015. PMID: 26397464 Free PMC article.

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