Literature DB >> 24059497

NextGen protein design.

Nicholas Sawyer1,2, Elizabeth B Speltz1, Lynne Regan1,2,3.   

Abstract

Protein engineering is at an exciting stage because designed protein-protein interactions are being used in many applications. For instance, three designed proteins are now in clinical trials. Although there have been many successes over the last decade, protein engineering still faces numerous challenges. Often, designs do not work as anticipated and they still require substantial redesign. The present review focuses on the successes, the challenges and the limitations of rational protein design today.

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Year:  2013        PMID: 24059497      PMCID: PMC4051282          DOI: 10.1042/BST20130112

Source DB:  PubMed          Journal:  Biochem Soc Trans        ISSN: 0300-5127            Impact factor:   5.407


  41 in total

Review 1.  WW and SH3 domains, two different scaffolds to recognize proline-rich ligands.

Authors:  Maria J Macias; Silke Wiesner; Marius Sudol
Journal:  FEBS Lett       Date:  2002-02-20       Impact factor: 4.124

2.  Recombinant human factor VIII-specific affinity ligands selected from phage-displayed combinatorial libraries of protein A.

Authors:  K Nord; O Nord; M Uhlén; B Kelley; C Ljungqvist; P A Nygren
Journal:  Eur J Biochem       Date:  2001-08

3.  Computer-aided design of a PDZ domain to recognize new target sequences.

Authors:  Jose Reina; Emmanuel Lacroix; Scott D Hobson; Gregorio Fernandez-Ballester; Vladimir Rybin; Markus S Schwab; Luis Serrano; Cayetano Gonzalez
Journal:  Nat Struct Biol       Date:  2002-08

4.  Design of stable alpha-helical arrays from an idealized TPR motif.

Authors:  Ewan R G Main; Yong Xiong; Melanie J Cocco; Luca D'Andrea; Lynne Regan
Journal:  Structure       Date:  2003-05       Impact factor: 5.006

5.  Directed evolution of high-affinity antibody mimics using mRNA display.

Authors:  Lihui Xu; Patti Aha; Ke Gu; Robert G Kuimelis; Markus Kurz; Terence Lam; Ai Ching Lim; Hongxiang Liu; Peter A Lohse; Lin Sun; Shawn Weng; Richard W Wagner; Dasa Lipovsek
Journal:  Chem Biol       Date:  2002-08

6.  CIS display: In vitro selection of peptides from libraries of protein-DNA complexes.

Authors:  Richard Odegrip; David Coomber; Bill Eldridge; Rosemarie Hederer; Philip A Kuhlman; Christopher Ullman; Kevin FitzGerald; Duncan McGregor
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-23       Impact factor: 11.205

7.  Designing repeat proteins: well-expressed, soluble and stable proteins from combinatorial libraries of consensus ankyrin repeat proteins.

Authors:  H Kaspar Binz; Michael T Stumpp; Patrik Forrer; Patrick Amstutz; Andreas Plückthun
Journal:  J Mol Biol       Date:  2003-09-12       Impact factor: 5.469

8.  All repeats are not equal: a module-based approach to guide repeat protein design.

Authors:  Nicholas Sawyer; Jieming Chen; Lynne Regan
Journal:  J Mol Biol       Date:  2013-02-19       Impact factor: 5.469

9.  Treatment of diabetic macular edema with a designed ankyrin repeat protein that binds vascular endothelial growth factor: a phase I/II study.

Authors:  Peter A Campochiaro; Roomasa Channa; Brian B Berger; Jeffrey S Heier; David M Brown; Ulrike Fiedler; Julia Hepp; Michael T Stumpp
Journal:  Am J Ophthalmol       Date:  2012-12-04       Impact factor: 5.258

10.  High-affinity binders selected from designed ankyrin repeat protein libraries.

Authors:  H Kaspar Binz; Patrick Amstutz; Andreas Kohl; Michael T Stumpp; Christophe Briand; Patrik Forrer; Markus G Grütter; Andreas Plückthun
Journal:  Nat Biotechnol       Date:  2004-04-18       Impact factor: 54.908

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  5 in total

Review 1.  A designed repeat protein as an affinity capture reagent.

Authors:  Elizabeth B Speltz; Rebecca S H Brown; Holly S Hajare; Christian Schlieker; Lynne Regan
Journal:  Biochem Soc Trans       Date:  2015-10       Impact factor: 5.407

2.  CODV-Ig, a universal bispecific tetravalent and multifunctional immunoglobulin format for medical applications.

Authors:  Anke Steinmetz; François Vallée; Christian Beil; Christian Lange; Nicolas Baurin; Jochen Beninga; Cécile Capdevila; Carsten Corvey; Alain Dupuy; Paul Ferrari; Alexey Rak; Peter Wonerow; Jochen Kruip; Vincent Mikol; Ercole Rao
Journal:  MAbs       Date:  2016-03-16       Impact factor: 5.857

3.  Purification and assembly of thermostable Cy5 labeled γ-PNAs into a 3D DNA nanocage.

Authors:  Justin D Flory; Trey Johnson; Chad D Simmons; Su Lin; Giovanna Ghirlanda; Petra Fromme
Journal:  Artif DNA PNA XNA       Date:  2014-12-15

4.  Functionalization of a symmetric protein scaffold: Redundant folding nuclei and alternative oligomeric folding pathways.

Authors:  Connie A Tenorio; Joseph B Parker; Michael Blaber
Journal:  Protein Sci       Date:  2022-05       Impact factor: 6.725

5.  PyFolding: Open-Source Graphing, Simulation, and Analysis of the Biophysical Properties of Proteins.

Authors:  Alan R Lowe; Albert Perez-Riba; Laura S Itzhaki; Ewan R G Main
Journal:  Biophys J       Date:  2018-02-06       Impact factor: 3.699

  5 in total

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