Baker D - Search Results

1

Robust deep learning-based protein sequence design using ProteinMPNN.

Dauparas J, Anishchenko I, Bennett N, Bai H, Ragotte RJ, Milles LF, Wicky BIM, Courbet A, de Haas RJ, Bethel N, Leung PJY, Huddy TF, Pellock S, Tischer D, Chan F, Koepnick B, Nguyen H, Kang A, Sankaran B, Bera AK, King NP, Baker D. Dauparas J, et al. Among authors: baker d. Science. 2022 Oct 7;378(6615):49-56. doi: 10.1126/science.add2187. Epub 2022 Sep 15. Science. 2022. PMID: 36108050 Free PMC article.

2

Native protein sequences are close to optimal for their structures.

Kuhlman B, Baker D. Kuhlman B, et al. Among authors: baker d. Proc Natl Acad Sci U S A. 2000 Sep 12;97(19):10383-8. doi: 10.1073/pnas.97.19.10383. Proc Natl Acad Sci U S A. 2000. PMID: 10984534 Free PMC article.

3

Protein structure prediction and structural genomics.

Baker D, Sali A. Baker D, et al. Science. 2001 Oct 5;294(5540):93-6. doi: 10.1126/science.1065659. Science. 2001. PMID: 11588250

4

Accurate computer-based design of a new backbone conformation in the second turn of protein L.

Kuhlman B, O'Neill JW, Kim DE, Zhang KY, Baker D. Kuhlman B, et al. Among authors: baker d. J Mol Biol. 2002 Jan 18;315(3):471-7. doi: 10.1006/jmbi.2001.5229. J Mol Biol. 2002. PMID: 11786026

5

A large scale test of computational protein design: folding and stability of nine completely redesigned globular proteins.

Dantas G, Kuhlman B, Callender D, Wong M, Baker D. Dantas G, et al. Among authors: baker d. J Mol Biol. 2003 Sep 12;332(2):449-60. doi: 10.1016/s0022-2836(03)00888-x. J Mol Biol. 2003. PMID: 12948494

6

Design of a novel globular protein fold with atomic-level accuracy.

Kuhlman B, Dantas G, Ireton GC, Varani G, Stoddard BL, Baker D. Kuhlman B, et al. Among authors: baker d. Science. 2003 Nov 21;302(5649):1364-8. doi: 10.1126/science.1089427. Science. 2003. PMID: 14631033

7

Toward high-resolution de novo structure prediction for small proteins.

Bradley P, Misura KM, Baker D. Bradley P, et al. Among authors: baker d. Science. 2005 Sep 16;309(5742):1868-71. doi: 10.1126/science.1113801. Science. 2005. PMID: 16166519

8

Progress in modeling of protein structures and interactions.

Schueler-Furman O, Wang C, Bradley P, Misura K, Baker D. Schueler-Furman O, et al. Among authors: baker d. Science. 2005 Oct 28;310(5748):638-42. doi: 10.1126/science.1112160. Science. 2005. PMID: 16254179 Review.

9

Recapitulation and design of protein binding peptide structures and sequences.

Sood VD, Baker D. Sood VD, et al. Among authors: baker d. J Mol Biol. 2006 Mar 31;357(3):917-27. doi: 10.1016/j.jmb.2006.01.045. Epub 2006 Jan 31. J Mol Biol. 2006. PMID: 16473368

10

High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design.

Dantas G, Corrent C, Reichow SL, Havranek JJ, Eletr ZM, Isern NG, Kuhlman B, Varani G, Merritt EA, Baker D. Dantas G, et al. Among authors: baker d. J Mol Biol. 2007 Mar 2;366(4):1209-21. doi: 10.1016/j.jmb.2006.11.080. Epub 2006 Dec 2. J Mol Biol. 2007. PMID: 17196978 Free PMC article.

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