Baker D - Search Results

1

Unraveling the functional dark matter through global metagenomics.

Pavlopoulos GA, Baltoumas FA, Liu S, Selvitopi O, Camargo AP, Nayfach S, Azad A, Roux S, Call L, Ivanova NN, Chen IM, Paez-Espino D, Karatzas E; Novel Metagenome Protein Families Consortium; Iliopoulos I, Konstantinidis K, Tiedje JM, Pett-Ridge J, Baker D, Visel A, Ouzounis CA, Ovchinnikov S, Buluç A, Kyrpides NC. Pavlopoulos GA, et al. Among authors: baker d. Nature. 2023 Oct;622(7983):594-602. doi: 10.1038/s41586-023-06583-7. Epub 2023 Oct 11. Nature. 2023. PMID: 37821698 Free PMC article.

2

Functional rapidly folding proteins from simplified amino acid sequences.

Riddle DS, Santiago JV, Bray-Hall ST, Doshi N, Grantcharova VP, Yi Q, Baker D. Riddle DS, et al. Among authors: baker d. Nat Struct Biol. 1997 Oct;4(10):805-9. doi: 10.1038/nsb1097-805. Nat Struct Biol. 1997. PMID: 9334745

3

A surprising simplicity to protein folding.

Baker D. Baker D. Nature. 2000 May 4;405(6782):39-42. doi: 10.1038/35011000. Nature. 2000. PMID: 10811210

4

Principles for designing ideal protein structures.

Koga N, Tatsumi-Koga R, Liu G, Xiao R, Acton TB, Montelione GT, Baker D. Koga N, et al. Among authors: baker d. Nature. 2012 Nov 8;491(7423):222-7. doi: 10.1038/nature11600. Nature. 2012. PMID: 23135467 Free PMC article.

5

Assessing the utility of coevolution-based residue-residue contact predictions in a sequence- and structure-rich era.

Kamisetty H, Ovchinnikov S, Baker D. Kamisetty H, et al. Among authors: baker d. Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15674-9. doi: 10.1073/pnas.1314045110. Epub 2013 Sep 5. Proc Natl Acad Sci U S A. 2013. PMID: 24009338 Free PMC article.

6

Improved low-resolution crystallographic refinement with Phenix and Rosetta.

DiMaio F, Echols N, Headd JJ, Terwilliger TC, Adams PD, Baker D. DiMaio F, et al. Among authors: baker d. Nat Methods. 2013 Nov;10(11):1102-4. doi: 10.1038/nmeth.2648. Epub 2013 Sep 29. Nat Methods. 2013. PMID: 24076763 Free PMC article.

7

Robust and accurate prediction of residue-residue interactions across protein interfaces using evolutionary information.

Ovchinnikov S, Kamisetty H, Baker D. Ovchinnikov S, et al. Among authors: baker d. Elife. 2014 May 1;3:e02030. doi: 10.7554/eLife.02030. Elife. 2014. PMID: 24842992 Free PMC article.

8

Computation and Functional Studies Provide a Model for the Structure of the Zinc Transporter hZIP4.

Antala S, Ovchinnikov S, Kamisetty H, Baker D, Dempski RE. Antala S, et al. Among authors: baker d. J Biol Chem. 2015 Jul 17;290(29):17796-17805. doi: 10.1074/jbc.M114.617613. Epub 2015 May 13. J Biol Chem. 2015. PMID: 25971965 Free PMC article.

9

Large-scale determination of previously unsolved protein structures using evolutionary information.

Ovchinnikov S, Kinch L, Park H, Liao Y, Pei J, Kim DE, Kamisetty H, Grishin NV, Baker D. Ovchinnikov S, et al. Among authors: baker d. Elife. 2015 Sep 3;4:e09248. doi: 10.7554/eLife.09248. Elife. 2015. PMID: 26335199 Free PMC article.

10

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. Brunette TJ, et al. Among authors: baker d. Nature. 2015 Dec 24;528(7583):580-4. doi: 10.1038/nature16162. Epub 2015 Dec 16. Nature. 2015. PMID: 26675729 Free PMC article.

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