Baker D - Search Results

1

Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14.

Anishchenko I, Baek M, Park H, Hiranuma N, Kim DE, Dauparas J, Mansoor S, Humphreys IR, Baker D. Anishchenko I, et al. Among authors: baker d. Proteins. 2021 Dec;89(12):1722-1733. doi: 10.1002/prot.26194. Epub 2021 Aug 17. Proteins. 2021. PMID: 34331359 Free PMC article.

2

Local interactions and the optimization of protein folding.

Doyle R, Simons K, Qian H, Baker D. Doyle R, et al. Among authors: baker d. Proteins. 1997 Nov;29(3):282-91. doi: 10.1002/(sici)1097-0134(199711)29:3<282::aid-prot3>3.0.co;2-d. Proteins. 1997. PMID: 9365984

3

Contrasting roles for symmetrically disposed beta-turns in the folding of a small protein.

Gu H, Kim D, Baker D. Gu H, et al. Among authors: baker d. J Mol Biol. 1997 Dec 12;274(4):588-96. doi: 10.1006/jmbi.1997.1374. J Mol Biol. 1997. PMID: 9417937

4

Blind predictions of local protein structure in CASP2 targets using the I-sites library.

Bystroff C, Baker D. Bystroff C, et al. Among authors: baker d. Proteins. 1997;Suppl 1:167-71. doi: 10.1002/(sici)1097-0134(1997)1+<167::aid-prot21>3.3.co;2-y. Proteins. 1997. PMID: 9485508

5

The sequences of small proteins are not extensively optimized for rapid folding by natural selection.

Kim DE, Gu H, Baker D. Kim DE, et al. Among authors: baker d. Proc Natl Acad Sci U S A. 1998 Apr 28;95(9):4982-6. doi: 10.1073/pnas.95.9.4982. Proc Natl Acad Sci U S A. 1998. PMID: 9560214 Free PMC article.

6

The single helix in protein L is largely disrupted at the rate-limiting step in folding.

Kim DE, Yi Q, Gladwin ST, Goldberg JM, Baker D. Kim DE, et al. Among authors: baker d. J Mol Biol. 1998 Dec 4;284(3):807-15. doi: 10.1006/jmbi.1998.2200. J Mol Biol. 1998. PMID: 9826517

7

Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins.

Simons KT, Ruczinski I, Kooperberg C, Fox BA, Bystroff C, Baker D. Simons KT, et al. Among authors: baker d. Proteins. 1999 Jan 1;34(1):82-95. doi: 10.1002/(sici)1097-0134(19990101)34:1<82::aid-prot7>3.0.co;2-a. Proteins. 1999. PMID: 10336385

8

Ab initio protein structure prediction of CASP III targets using ROSETTA.

Simons KT, Bonneau R, Ruczinski I, Baker D. Simons KT, et al. Among authors: baker d. Proteins. 1999;Suppl 3:171-6. doi: 10.1002/(sici)1097-0134(1999)37:3+<171::aid-prot21>3.3.co;2-q. Proteins. 1999. PMID: 10526365

9

Robustness of protein folding kinetics to surface hydrophobic substitutions.

Gu H, Doshi N, Kim DE, Simons KT, Santiago JV, Nauli S, Baker D. Gu H, et al. Among authors: baker d. Protein Sci. 1999 Dec;8(12):2734-41. doi: 10.1110/ps.8.12.2734. Protein Sci. 1999. PMID: 10631990 Free PMC article.

10

A breakdown of symmetry in the folding transition state of protein L.

Kim DE, Fisher C, Baker D. Kim DE, et al. Among authors: baker d. J Mol Biol. 2000 May 19;298(5):971-84. doi: 10.1006/jmbi.2000.3701. J Mol Biol. 2000. PMID: 10801362

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