A de novo protein binding pair by computational design and directed evolution.
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David Baker | Orly Dym | Tamar Unger | Gaohua Liu | Gaetano T Montelione | Scott Delbecq | David R. Liu | John Karanicolas | Jacob E Corn | David R Liu | D. Baker | Gaohua Liu | G. Montelione | J. Karanicolas | O. Dym | S. Albeck | L. Joachimiak | T. Unger | J. Corn | Shira Albeck | Lukasz A Joachimiak | Irwin Chen | Sun H. Peck | Irwin Chen | Sun H Peck | Wenxin Hu | Clint P Spiegel | S. Delbecq | Wenxin Hu | C. Spiegel | D. Baker
[1] Dan S. Tawfik,et al. Conformational diversity and protein evolution--a 60-year-old hypothesis revisited. , 2003, Trends in biochemical sciences.
[2] A. Lim,et al. Directed evolution of high-affinity antibody mimics using mRNA display. , 2002, Chemistry & biology.
[3] Daniel C. Desrosiers,et al. The ankyrin repeat as molecular architecture for protein recognition , 2004, Protein science : a publication of the Protein Society.
[4] J. Skolnick,et al. TM-align: a protein structure alignment algorithm based on the TM-score , 2005, Nucleic acids research.
[5] Cynthia Wolberger,et al. The Structure of GABPα/β: An ETS Domain- Ankyrin Repeat Heterodimer Bound to DNA , 1998 .
[6] Dan S. Tawfik,et al. Enzyme promiscuity: evolutionary and mechanistic aspects. , 2006, Current opinion in chemical biology.
[7] T. Clackson,et al. Structural and functional analysis of the 1:1 growth hormone:receptor complex reveals the molecular basis for receptor affinity. , 1998, Journal of molecular biology.
[8] B. Crane,et al. Effects of interface mutations on association modes and electron-transfer rates between proteins , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[9] S. Radford,et al. Optimizing protein stability in vivo. , 2009, Molecular cell.
[10] James R. Apgar,et al. Predicting helix orientation for coiled‐coil dimers , 2008, Proteins.
[11] Frances H Arnold,et al. Corrigendum: Dual selection enhances the signaling specificity of a variant of the quorum-sensing transcriptional activator LuxR , 2006, Nature Biotechnology.
[12] Amy E Keating,et al. A synthetic coiled-coil interactome provides heterospecific modules for molecular engineering. , 2010, Journal of the American Chemical Society.
[13] R. Russell,et al. The relationship between sequence and interaction divergence in proteins. , 2003, Journal of molecular biology.
[14] D. Baker,et al. Realistic protein–protein association rates from a simple diffusional model neglecting long‐range interactions, free energy barriers, and landscape ruggedness , 2004, Protein science : a publication of the Protein Society.
[15] Andreas Plückthun,et al. Allosteric inhibition of aminoglycoside phosphotransferase by a designed ankyrin repeat protein. , 2005, Structure.
[16] Melvin I Simon,et al. In different organisms, the mode of interaction between two signaling proteins is not necessarily conserved. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[17] Tanja Kortemme,et al. Backbone flexibility in computational protein design. , 2009, Current opinion in biotechnology.
[18] Thomas Szyperski,et al. Computational design of a PAK1 binding protein. , 2010, Journal of molecular biology.
[19] T. Sosnick,et al. Principal determinants leading to transition state formation of a protein–protein complex, orientation trumps side-chain interactions , 2009, Proceedings of the National Academy of Sciences.
[20] D. Baker,et al. A large scale test of computational protein design: folding and stability of nine completely redesigned globular proteins. , 2003, Journal of molecular biology.
[21] D. Baker,et al. Design of a Novel Globular Protein Fold with Atomic-Level Accuracy , 2003, Science.
[22] A. Bogan,et al. Anatomy of hot spots in protein interfaces. , 1998, Journal of molecular biology.
[23] Gevorg Grigoryan,et al. Design of protein-interaction specificity affords selective bZIP-binding peptides , 2009, Nature.
[24] D. M. Brown,et al. An approach to random mutagenesis of DNA using mixtures of triphosphate derivatives of nucleoside analogues. , 1996, Journal of molecular biology.
[25] Pedro Alexandrino Fernandes,et al. Computational alanine scanning mutagenesis—An improved methodological approach , 2007, J. Comput. Chem..
[26] Tanja Kortemme,et al. Computer-aided design of functional protein interactions. , 2009, Nature chemical biology.
[27] S. Vajda,et al. Anchor residues in protein-protein interactions. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[28] Gevorg Grigoryan,et al. Structure-based prediction of bZIP partnering specificity. , 2006, Journal of molecular biology.
[29] Nir London,et al. Funnel hunting in a rough terrain: learning and discriminating native energy funnels. , 2008, Structure.
[30] P. Chakrabarti,et al. Conservation and relative importance of residues across protein-protein interfaces , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[31] Peer Bork,et al. SMART 5: domains in the context of genomes and networks , 2005, Nucleic Acids Res..
[32] Jie Liang,et al. Protein-protein interactions: hot spots and structurally conserved residues often locate in complemented pockets that pre-organized in the unbound states: implications for docking. , 2004, Journal of molecular biology.
[33] Ruth Nussinov,et al. Taking geometry to its edge: Fast unbound rigid (and hinge‐bent) docking , 2003, Proteins.
[34] Julia M. Shifman,et al. Modulating calmodulin binding specificity through computational protein design. , 2002, Journal of molecular biology.
[35] D. Baker,et al. RosettaHoles: Rapid assessment of protein core packing for structure prediction, refinement, design, and validation , 2008, Protein science : a publication of the Protein Society.
[36] D. Baker,et al. High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design , 2007, Journal of molecular biology.
[37] D. Baker,et al. Computational redesign of protein-protein interaction specificity , 2004, Nature Structural &Molecular Biology.
[38] Dan S. Tawfik,et al. The 'evolvability' of promiscuous protein functions , 2005, Nature Genetics.
[39] T. Clackson,et al. A hot spot of binding energy in a hormone-receptor interface , 1995, Science.
[40] A. Kapila,et al. Picomolar affinity fibronectin domains engineered utilizing loop length diversity, recursive mutagenesis, and loop shuffling. , 2008, Journal of molecular biology.
[41] A. Plückthun,et al. Efficient selection of DARPins with sub-nanomolar affinities using SRP phage display. , 2008, Journal of molecular biology.
[42] Pasch,et al. References and Notes Supporting Online Material Evolution of Hormone-receptor Complexity by Molecular Exploitation , 2022 .
[43] C. Roy,et al. Ankyrin Repeat Proteins Comprise a Diverse Family of Bacterial Type IV Effectors , 2008, Science.
[44] A. Plückthun,et al. Engineering novel binding proteins from nonimmunoglobulin domains , 2005, Nature Biotechnology.
[45] Stephen L Mayo,et al. A de novo designed protein–protein interface , 2007, Protein science : a publication of the Protein Society.
[46] Chun Tang,et al. Characterizing dynamic protein-protein interactions using differentially scaled paramagnetic relaxation enhancement. , 2009, Journal of the American Chemical Society.
[47] Yang Zhang,et al. MM-align: a quick algorithm for aligning multiple-chain protein complex structures using iterative dynamic programming , 2009, Nucleic acids research.