Literature DB >> 20192262

Metal-directed protein self-assembly.

Eric N Salgado1, Robert J Radford, F Akif Tezcan.   

Abstract

Proteins are nature's premier building blocks for constructing sophisticated nanoscale architectures that carry out complex tasks and chemical transformations. Some 70%-80% of all proteins are thought to be permanently oligomeric; that is, they are composed of multiple proteins that are held together in precise spatial organization through noncovalent interactions. Although it is of great fundamental interest to understand the physicochemical basis of protein self-assembly, the mastery of protein-protein interactions (PPIs) would also allow access to novel biomaterials with nature's favorite and most versatile building block. In this Account, we describe a new approach we have developed with this possibility in mind, metal-directed protein self-assembly (MDPSA), which utilizes the strength, directionality, and selectivity of metal-ligand interactions to control PPIs. At its core, MDPSA is inspired by supramolecular coordination chemistry, which exploits metal coordination for the self-assembly of small molecules into discrete, more-or-less predictable higher order structures. Proteins, however, are not exactly small molecules or simple metal ligands: they feature extensive, heterogeneous surfaces that can interact with each other and with metal ions in unpredictable ways. We begin by first describing the challenges of using entire proteins as molecular building blocks. We follow with an examination of our work on a model protein (cytochrome cb(562)), highlighting challenges toward establishing ground rules for MDPSA as well as progress in overcoming these challenges. Proteins are also nature's metal ligands of choice. In MDPSA, once metal ions guide proteins into forming large assemblies, they are by definition embedded within extensive interfaces formed between protein surfaces. These complex surfaces make an inorganic chemist's life somewhat difficult, yet they also provide a wide platform to modulate the metal coordination environment through distant, noncovalent interactions, exactly as natural metalloproteins and enzymes do. We describe our computational and experimental efforts toward restructuring the noncovalent interaction network formed between proteins surrounding the interfacial metal centers. This approach, of metal templating followed by the redesign of protein interfaces (metal-templated interface redesign, MeTIR), not only provides a route to engineer de novo PPIs and novel metal coordination environments but also suggests possible parallels with the evolution of metalloproteins.

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Year:  2010        PMID: 20192262      PMCID: PMC2873059          DOI: 10.1021/ar900273t

Source DB:  PubMed          Journal:  Acc Chem Res        ISSN: 0001-4842            Impact factor:   22.384


  27 in total

1.  Control of metal coordination number in de novo designed peptides through subtle sequence modifications.

Authors:  Kyung-Hoon Lee; Manolis Matzapetakis; Soumya Mitra; E Neil G Marsh; Vincent L Pecoraro
Journal:  J Am Chem Soc       Date:  2004-08-04       Impact factor: 15.419

Review 2.  Computational design of protein-protein interactions.

Authors:  Tanja Kortemme; David Baker
Journal:  Curr Opin Chem Biol       Date:  2004-02       Impact factor: 8.822

3.  Stability and folding kinetics of structurally characterized cytochrome c-b562.

Authors:  Jasmin Faraone-Mennella; F Akif Tezcan; Harry B Gray; Jay R Winkler
Journal:  Biochemistry       Date:  2006-09-05       Impact factor: 3.162

4.  Functional molecular flasks: new properties and reactions within discrete, self-assembled hosts.

Authors:  Michito Yoshizawa; Jeremy K Klosterman; Makoto Fujita
Journal:  Angew Chem Int Ed Engl       Date:  2009       Impact factor: 15.336

Review 5.  Principles of protein-protein interactions.

Authors:  S Jones; J M Thornton
Journal:  Proc Natl Acad Sci U S A       Date:  1996-01-09       Impact factor: 11.205

6.  Metal templated design of protein interfaces.

Authors:  Eric N Salgado; Xavier I Ambroggio; Jeffrey D Brodin; Richard A Lewis; Brian Kuhlman; F Akif Tezcan
Journal:  Proc Natl Acad Sci U S A       Date:  2009-12-23       Impact factor: 11.205

7.  Control of protein oligomerization symmetry by metal coordination: C2 and C3 symmetrical assemblies through Cu(II) and Ni(II) coordination.

Authors:  Eric N Salgado; Richard A Lewis; Susanne Mossin; Arnold L Rheingold; F Akif Tezcan
Journal:  Inorg Chem       Date:  2009-04-06       Impact factor: 5.165

8.  A superprotein triangle driven by nickel(II) coordination: exploiting non-natural metal ligands in protein self-assembly.

Authors:  Robert J Radford; F Akif Tezcan
Journal:  J Am Chem Soc       Date:  2009-07-08       Impact factor: 15.419

9.  RosettaDesign server for protein design.

Authors:  Yi Liu; Brian Kuhlman
Journal:  Nucleic Acids Res       Date:  2006-07-01       Impact factor: 16.971

10.  Design and engineering of an O(2) transport protein.

Authors:  Ronald L Koder; J L Ross Anderson; Lee A Solomon; Konda S Reddy; Christopher C Moser; P Leslie Dutton
Journal:  Nature       Date:  2009-03-19       Impact factor: 49.962

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  48 in total

1.  Self-assembly: Proteins on parade.

Authors:  John C Sinclair
Journal:  Nat Chem       Date:  2012-04-23       Impact factor: 24.427

2.  Designing functional metalloproteins: from structural to catalytic metal sites.

Authors:  Melissa L Zastrow; Vincent L Pecoraro
Journal:  Coord Chem Rev       Date:  2013-09       Impact factor: 22.315

Review 3.  Can the propensity of protein crystallization be increased by using systematic screening with metals?

Authors:  Raghurama P Hegde; Gowribidanur C Pavithra; Debayan Dey; Steven C Almo; S Ramakumar; Udupi A Ramagopal
Journal:  Protein Sci       Date:  2017-06-29       Impact factor: 6.725

4.  Benchmarking a computational design method for the incorporation of metal ion-binding sites at symmetric protein interfaces.

Authors:  William A Hansen; Sagar D Khare
Journal:  Protein Sci       Date:  2017-05-31       Impact factor: 6.725

5.  Coordinating subdomains of ferritin protein cages with catalysis and biomineralization viewed from the C4 cage axes.

Authors:  Elizabeth C Theil; Paola Turano; Veronica Ghini; Marco Allegrozzi; Caterina Bernacchioni
Journal:  J Biol Inorg Chem       Date:  2014-02-07       Impact factor: 3.358

6.  Probing the minimal determinants of zinc binding with computational protein design.

Authors:  Sharon L Guffy; Bryan S Der; Brian Kuhlman
Journal:  Protein Eng Des Sel       Date:  2016-06-29       Impact factor: 1.650

7.  Biological stimuli and biomolecules in the assembly and manipulation of nanoscale polymeric particles.

Authors:  Lyndsay M Randolph; Miao-Ping Chien; Nathan C Gianneschi
Journal:  Chem Sci       Date:  2012-05-01       Impact factor: 9.825

Review 8.  Using anchoring motifs for the computational design of protein-protein interactions.

Authors:  Timothy M Jacobs; Brian Kuhlman
Journal:  Biochem Soc Trans       Date:  2013-10       Impact factor: 5.407

Review 9.  Design of artificial metalloproteins/metalloenzymes by tuning noncovalent interactions.

Authors:  Shun Hirota; Ying-Wu Lin
Journal:  J Biol Inorg Chem       Date:  2017-12-07       Impact factor: 3.358

Review 10.  Functional protein nanostructures: a chemical toolbox.

Authors:  Seah Ling Kuan; Fernando R G Bergamini; Tanja Weil
Journal:  Chem Soc Rev       Date:  2018-11-19       Impact factor: 54.564

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