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Items: 1 to 20 of 27

1.

De novo design of a fluorescence-activating β-barrel.

Dou J, Vorobieva AA, Sheffler W, Doyle LA, Park H, Bick MJ, Mao B, Foight GW, Lee MY, Gagnon LA, Carter L, Sankaran B, Ovchinnikov S, Marcos E, Huang PS, Vaughan JC, Stoddard BL, Baker D.

Nature. 2018 Sep;561(7724):485-491. doi: 10.1038/s41586-018-0509-0. Epub 2018 Sep 12.

PMID:
30209393
2.

Designing repeat proteins: a modular approach to protein design.

Parmeggiani F, Huang PS.

Curr Opin Struct Biol. 2017 Aug;45:116-123. doi: 10.1016/j.sbi.2017.02.001. Epub 2017 Mar 3. Review.

PMID:
28267654
3.

Protein structure determination using metagenome sequence data.

Ovchinnikov S, Park H, Varghese N, Huang PS, Pavlopoulos GA, Kim DE, Kamisetty H, Kyrpides NC, Baker D.

Science. 2017 Jan 20;355(6322):294-298. doi: 10.1126/science.aah4043.

4.

A computationally engineered RAS rheostat reveals RAS-ERK signaling dynamics.

Rose JC, Huang PS, Camp ND, Ye J, Leidal AM, Goreshnik I, Trevillian BM, Dickinson MS, Cunningham-Bryant D, Debnath J, Baker D, Wolf-Yadlin A, Maly DJ.

Nat Chem Biol. 2017 Jan;13(1):119-126. doi: 10.1038/nchembio.2244. Epub 2016 Nov 21.

5.

Corrigendum: Design of a hyperstable 60-subunit protein icosahedron.

Hsia Y, Bale JB, Gonen S, Shi D, Sheffler W, Fong KK, Nattermann U, Xu C, Huang PS, Ravichandran R, Yi S, Davis TN, Gonen T, King NP, Baker D.

Nature. 2016 Dec 1;540(7631):150. doi: 10.1038/nature20108. Epub 2016 Oct 19. No abstract available.

PMID:
27760110
6.

Accurate de novo design of hyperstable constrained peptides.

Bhardwaj G, Mulligan VK, Bahl CD, Gilmore JM, Harvey PJ, Cheneval O, Buchko GW, Pulavarti SV, Kaas Q, Eletsky A, Huang PS, Johnsen WA, Greisen PJ, Rocklin GJ, Song Y, Linsky TW, Watkins A, Rettie SA, Xu X, Carter LP, Bonneau R, Olson JM, Coutsias E, Correnti CE, Szyperski T, Craik DJ, Baker D.

Nature. 2016 Oct 20;538(7625):329-335. doi: 10.1038/nature19791. Epub 2016 Sep 14.

7.

The coming of age of de novo protein design.

Huang PS, Boyken SE, Baker D.

Nature. 2016 Sep 15;537(7620):320-7. doi: 10.1038/nature19946. Review.

PMID:
27629638
8.

Design of a hyperstable 60-subunit protein dodecahedron. [corrected].

Hsia Y, Bale JB, Gonen S, Shi D, Sheffler W, Fong KK, Nattermann U, Xu C, Huang PS, Ravichandran R, Yi S, Davis TN, Gonen T, King NP, Baker D.

Nature. 2016 Jul 7;535(7610):136-9. doi: 10.1038/nature18010. Epub 2016 Jun 15. Erratum in: Nature. 2016 Dec 1;540(7631):150.

9.

Exploring the repeat protein universe through computational protein design.

Brunette TJ, Parmeggiani F, Huang PS, Bhabha G, Ekiert DC, Tsutakawa SE, Hura GL, Tainer JA, Baker D.

Nature. 2015 Dec 24;528(7583):580-4. doi: 10.1038/nature16162. Epub 2015 Dec 16.

10.

De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy.

Huang PS, Feldmeier K, Parmeggiani F, Velasco DAF, Höcker B, Baker D.

Nat Chem Biol. 2016 Jan;12(1):29-34. doi: 10.1038/nchembio.1966. Epub 2015 Nov 23.

11.

Computational design and experimental verification of a symmetric protein homodimer.

Mou Y, Huang PS, Hsu FC, Huang SJ, Mayo SL.

Proc Natl Acad Sci U S A. 2015 Aug 25;112(34):10714-9. doi: 10.1073/pnas.1505072112. Epub 2015 Aug 12.

12.

Using Molecular Dynamics Simulations as an Aid in the Prediction of Domain Swapping of Computationally Designed Protein Variants.

Mou Y, Huang PS, Thomas LM, Mayo SL.

J Mol Biol. 2015 Aug 14;427(16):2697-706. doi: 10.1016/j.jmb.2015.06.006. Epub 2015 Jun 21.

PMID:
26101839
13.

Control of repeat-protein curvature by computational protein design.

Park K, Shen BW, Parmeggiani F, Huang PS, Stoddard BL, Baker D.

Nat Struct Mol Biol. 2015 Feb;22(2):167-74. doi: 10.1038/nsmb.2938. Epub 2015 Jan 12.

14.

Computational de novo design of a self-assembling peptide with predefined structure.

Kaltofen S, Li C, Huang PS, Serpell LC, Barth A, André I.

J Mol Biol. 2015 Jan 30;427(2):550-62. doi: 10.1016/j.jmb.2014.12.002. Epub 2014 Dec 10.

PMID:
25498388
15.

A general computational approach for repeat protein design.

Parmeggiani F, Huang PS, Vorobiev S, Xiao R, Park K, Caprari S, Su M, Seetharaman J, Mao L, Janjua H, Montelione GT, Hunt J, Baker D.

J Mol Biol. 2015 Jan 30;427(2):563-75. doi: 10.1016/j.jmb.2014.11.005. Epub 2014 Nov 14.

16.

High thermodynamic stability of parametrically designed helical bundles.

Huang PS, Oberdorfer G, Xu C, Pei XY, Nannenga BL, Rogers JM, DiMaio F, Gonen T, Luisi B, Baker D.

Science. 2014 Oct 24;346(6208):481-485. doi: 10.1126/science.1257481.

17.

Rational HIV immunogen design to target specific germline B cell receptors.

Jardine J, Julien JP, Menis S, Ota T, Kalyuzhniy O, McGuire A, Sok D, Huang PS, MacPherson S, Jones M, Nieusma T, Mathison J, Baker D, Ward AB, Burton DR, Stamatatos L, Nemazee D, Wilson IA, Schief WR.

Science. 2013 May 10;340(6133):711-6. doi: 10.1126/science.1234150. Epub 2013 Mar 28.

18.

Domain 1 of mucosal addressin cell adhesion molecule has an I1-set fold and a flexible integrin-binding loop.

Yu Y, Zhu J, Huang PS, Wang JH, Pullen N, Springer TA.

J Biol Chem. 2013 Mar 1;288(9):6284-94. doi: 10.1074/jbc.M112.413153. Epub 2013 Jan 7.

19.

Computation-guided backbone grafting of a discontinuous motif onto a protein scaffold.

Azoitei ML, Correia BE, Ban YE, Carrico C, Kalyuzhniy O, Chen L, Schroeter A, Huang PS, McLellan JS, Kwong PD, Baker D, Strong RK, Schief WR.

Science. 2011 Oct 21;334(6054):373-6. doi: 10.1126/science.1209368.

20.

A potent and broad neutralizing antibody recognizes and penetrates the HIV glycan shield.

Pejchal R, Doores KJ, Walker LM, Khayat R, Huang PS, Wang SK, Stanfield RL, Julien JP, Ramos A, Crispin M, Depetris R, Katpally U, Marozsan A, Cupo A, Maloveste S, Liu Y, McBride R, Ito Y, Sanders RW, Ogohara C, Paulson JC, Feizi T, Scanlan CN, Wong CH, Moore JP, Olson WC, Ward AB, Poignard P, Schief WR, Burton DR, Wilson IA.

Science. 2011 Nov 25;334(6059):1097-103. doi: 10.1126/science.1213256. Epub 2011 Oct 13.

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