Literature DB >> 28783726

Proteins evolve on the edge of supramolecular self-assembly.

Hector Garcia-Seisdedos1, Charly Empereur-Mot1, Nadav Elad2, Emmanuel D Levy1.   

Abstract

The self-association of proteins into symmetric complexes is ubiquitous in all kingdoms of life. Symmetric complexes possess unique geometric and functional properties, but their internal symmetry can pose a risk. In sickle-cell disease, the symmetry of haemoglobin exacerbates the effect of a mutation, triggering assembly into harmful fibrils. Here we examine the universality of this mechanism and its relation to protein structure geometry. We introduced point mutations solely designed to increase surface hydrophobicity among 12 distinct symmetric complexes from Escherichia coli. Notably, all responded by forming supramolecular assemblies in vitro, as well as in vivo upon heterologous expression in Saccharomyces cerevisiae. Remarkably, in four cases, micrometre-long fibrils formed in vivo in response to a single point mutation. Biophysical measurements and electron microscopy revealed that mutants self-assembled in their folded states and so were not amyloid-like. Structural examination of 73 mutants identified supramolecular assembly hot spots predictable by geometry. A subsequent structural analysis of 7,471 symmetric complexes showed that geometric hot spots were buffered chemically by hydrophilic residues, suggesting a mechanism preventing mis-assembly of these regions. Thus, point mutations can frequently trigger folded proteins to self-assemble into higher-order structures. This potential is counterbalanced by negative selection and can be exploited to design nanomaterials in living cells.

Entities:  

Mesh:

Substances:

Year:  2017        PMID: 28783726     DOI: 10.1038/nature23320

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  69 in total

1.  Principles of protein-protein recognition.

Authors:  C Chothia; J Janin
Journal:  Nature       Date:  1975-08-28       Impact factor: 49.962

2.  Crystal structure of decameric fructose-6-phosphate aldolase from Escherichia coli reveals inter-subunit helix swapping as a structural basis for assembly differences in the transaldolase family.

Authors:  Stina Thorell; Melanie Schürmann; Georg A Sprenger; Gunter Schneider
Journal:  J Mol Biol       Date:  2002-05-24       Impact factor: 5.469

3.  Accurate determination of local defocus and specimen tilt in electron microscopy.

Authors:  Joseph A Mindell; Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2003-06       Impact factor: 2.867

4.  Structure of a 16-nm cage designed by using protein oligomers.

Authors:  Yen-Ting Lai; Duilio Cascio; Todd O Yeates
Journal:  Science       Date:  2012-06-01       Impact factor: 47.728

5.  A simple definition of structural regions in proteins and its use in analyzing interface evolution.

Authors:  Emmanuel D Levy
Journal:  J Mol Biol       Date:  2010-09-22       Impact factor: 5.469

6.  Combining the polymerase incomplete primer extension method for cloning and mutagenesis with microscreening to accelerate structural genomics efforts.

Authors:  Heath E Klock; Eric J Koesema; Mark W Knuth; Scott A Lesley
Journal:  Proteins       Date:  2008-05-01

7.  Crystal structure of the acid-induced arginine decarboxylase from Escherichia coli: reversible decamer assembly controls enzyme activity.

Authors:  Juni Andréll; Matthew G Hicks; Tracy Palmer; Elisabeth P Carpenter; So Iwata; Megan J Maher
Journal:  Biochemistry       Date:  2009-05-12       Impact factor: 3.162

8.  Principles of assembly reveal a periodic table of protein complexes.

Authors:  Sebastian E Ahnert; Joseph A Marsh; Helena Hernández; Carol V Robinson; Sarah A Teichmann
Journal:  Science       Date:  2015-12-11       Impact factor: 47.728

9.  Electronic distributions within protein phenylalanine aromatic rings are reflected by the three-dimensional oxygen atom environments.

Authors:  K A Thomas; G M Smith; T B Thomas; R J Feldmann
Journal:  Proc Natl Acad Sci U S A       Date:  1982-08       Impact factor: 11.205

10.  The crystal structure of the Escherichia coli MobA protein provides insight into molybdopterin guanine dinucleotide biosynthesis.

Authors:  M W Lake; C A Temple; K V Rajagopalan; H Schindelin
Journal:  J Biol Chem       Date:  2000-12-22       Impact factor: 5.157

View more
  62 in total

1.  Simple yet functional phosphate-loop proteins.

Authors:  Maria Luisa Romero Romero; Fan Yang; Yu-Ru Lin; Agnes Toth-Petroczy; Igor N Berezovsky; Alexander Goncearenco; Wen Yang; Alon Wellner; Fanindra Kumar-Deshmukh; Michal Sharon; David Baker; Gabriele Varani; Dan S Tawfik
Journal:  Proc Natl Acad Sci U S A       Date:  2018-11-30       Impact factor: 11.205

2.  Ambidextrous helical nanotubes from self-assembly of designed helical hairpin motifs.

Authors:  Spencer A Hughes; Fengbin Wang; Shengyuan Wang; Mark A B Kreutzberger; Tomasz Osinski; Albina Orlova; Joseph S Wall; Xiaobing Zuo; Edward H Egelman; Vincent P Conticello
Journal:  Proc Natl Acad Sci U S A       Date:  2019-07-01       Impact factor: 11.205

3.  Designer protein assemblies with tunable phase diagrams in living cells.

Authors:  Meta Heidenreich; Joseph M Georgeson; Emanuele Locatelli; Lorenzo Rovigatti; Saroj Kumar Nandi; Avital Steinberg; Yotam Nadav; Eyal Shimoni; Samuel A Safran; Jonathan P K Doye; Emmanuel D Levy
Journal:  Nat Chem Biol       Date:  2020-07-13       Impact factor: 15.040

Review 4.  Towards developing principles of protein folding and dynamics in the cell.

Authors:  Margaret S Cheung; Andrei G Gasic
Journal:  Phys Biol       Date:  2018-07-30       Impact factor: 2.583

5.  Disassembly of the ring-type decameric structure of peroxiredoxin from Aeropyrum pernix K1 by amino acid mutation.

Authors:  Tomoki Himiyama; Tsutomu Nakamura
Journal:  Protein Sci       Date:  2020-02-12       Impact factor: 6.725

6.  PDB-wide identification of biological assemblies from conserved quaternary structure geometry.

Authors:  Sucharita Dey; David W Ritchie; Emmanuel D Levy
Journal:  Nat Methods       Date:  2017-11-20       Impact factor: 28.547

Review 7.  Interplay of self-association and conformational flexibility in regulating protein function.

Authors:  Michael Garton; Stephen S MacKinnon; Anatoly Malevanets; Shoshana J Wodak
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2018-06-19       Impact factor: 6.237

Review 8.  Structures, functions, and mechanisms of filament forming enzymes: a renaissance of enzyme filamentation.

Authors:  Chad K Park; Nancy C Horton
Journal:  Biophys Rev       Date:  2019-11-16

Review 9.  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

Review 10.  Unifying principles of bifunctional, proximity-inducing small molecules.

Authors:  Christopher J Gerry; Stuart L Schreiber
Journal:  Nat Chem Biol       Date:  2020-03-20       Impact factor: 15.040

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.