Literature DB >> 16823038

Atomic-resolution crystal structure of Borrelia burgdorferi outer surface protein A via surface engineering.

Koki Makabe1, Valentina Tereshko, Grzegorz Gawlak, Shude Yan, Shohei Koide.   

Abstract

Outer surface protein A (OspA) from Borrelia burgdorferi has an unusual dumbbell-shaped structure in which two globular domains are connected with a "single-layer" beta-sheet (SLB). The protein is highly soluble, and it has been recalcitrant to crystallization. Only OspA complexes with Fab fragments have been successfully crystallized. OspA contains a large number of Lys and Glu residues, and these "high entropy" residues may disfavor crystal packing because some of them would need to be immobilized in forming a crystal lattice. We rationally designed a total of 13 surface mutations in which Lys and Glu residues were replaced with Ala or Ser. We successfully crystallized the mutant OspA without a bound Fab fragment and extended structure analysis to a 1.15 Angstroms resolution. The new high-resolution structure revealed a unique backbone hydration pattern of the SLB segment in which water molecules fill the "weak spots" on both faces of the antiparallel beta-sheet. These well-defined water molecules provide additional structural links between adjacent beta-strands, and thus they may be important for maintaining the rigidity of the SLB that inherently lacks tight packing afforded by a hydrophobic core. The structure also revealed new information on the side-chain dynamics and on a solvent-accessible cavity in the core of the C-terminal globular domain. This work demonstrates the utility of extensive surface mutation in crystallizing recalcitrant proteins and dramatically improving the resolution of crystal structures, and provides new insights into the stabilization mechanism of OspA.

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Year:  2006        PMID: 16823038      PMCID: PMC2242579          DOI: 10.1110/ps.062246706

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  30 in total

Review 1.  Databases in protein crystallography.

Authors:  G J Kleywegt; T A Jones
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1998-11-01

2.  Rational protein crystallization by mutational surface engineering.

Authors:  Zygmunt S Derewenda
Journal:  Structure       Date:  2004-04       Impact factor: 5.006

3.  Structural investigation of Borrelia burgdorferi OspB, a bactericidal Fab target.

Authors:  Michael Becker; Jonas Bunikis; Barbara D Lade; John J Dunn; Alan G Barbour; Catherine L Lawson
Journal:  J Biol Chem       Date:  2005-02-15       Impact factor: 5.157

4.  Crystallography & NMR system: A new software suite for macromolecular structure determination.

Authors:  A T Brünger; P D Adams; G M Clore; W L DeLano; P Gros; R W Grosse-Kunstleve; J S Jiang; J Kuszewski; M Nilges; N S Pannu; R J Read; L M Rice; T Simonson; G L Warren
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1998-09-01

5.  NMR studies of Borrelia burgdorferi OspA, a 28 kDa protein containing a single-layer beta-sheet.

Authors:  T N Pham; S Koide
Journal:  J Biomol NMR       Date:  1998-05       Impact factor: 2.835

6.  A stable single-layer beta-sheet without a hydrophobic core.

Authors:  T N Pham; A Koide; S Koide
Journal:  Nat Struct Biol       Date:  1998-02

7.  Attachment of Borrelia burgdorferi within Ixodes scapularis mediated by outer surface protein A.

Authors:  U Pal; A M de Silva; R R Montgomery; D Fish; J Anguita; J F Anderson; Y Lobet; E Fikrig
Journal:  J Clin Invest       Date:  2000-08       Impact factor: 14.808

8.  Protein production by auto-induction in high density shaking cultures.

Authors:  F William Studier
Journal:  Protein Expr Purif       Date:  2005-05       Impact factor: 1.650

9.  Crystallization and preliminary X-ray analysis of Borrelia burgdorferi outer surface protein A (OspA) complexed with a murine monoclonal antibody Fab fragment.

Authors:  H Li; C L Lawson
Journal:  J Struct Biol       Date:  1995 Nov-Dec       Impact factor: 2.867

10.  Essential role for OspA/B in the life cycle of the Lyme disease spirochete.

Authors:  Xiaofeng F Yang; Utpal Pal; Sophie M Alani; Erol Fikrig; Michael V Norgard
Journal:  J Exp Med       Date:  2004-02-23       Impact factor: 14.307

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  18 in total

1.  Atomic structures of peptide self-assembly mimics.

Authors:  Koki Makabe; Dan McElheny; Valentia Tereshko; Aaron Hilyard; Grzegorz Gawlak; Shude Yan; Akiko Koide; Shohei Koide
Journal:  Proc Natl Acad Sci U S A       Date:  2006-11-08       Impact factor: 11.205

2.  Beta-strand flipping and slipping triggered by turn replacement reveal the opportunistic nature of beta-strand pairing.

Authors:  Koki Makabe; Shude Yan; Valentina Tereshko; Grzegorz Gawlak; Shohei Koide
Journal:  J Am Chem Soc       Date:  2007-11-07       Impact factor: 15.419

3.  Toward rational protein crystallization: A Web server for the design of crystallizable protein variants.

Authors:  Lukasz Goldschmidt; David R Cooper; Zygmunt S Derewenda; David Eisenberg
Journal:  Protein Sci       Date:  2007-08       Impact factor: 6.725

4.  Application of the PM6 method to modeling proteins.

Authors:  James J P Stewart
Journal:  J Mol Model       Date:  2008-12-10       Impact factor: 1.810

5.  Aromatic cluster mutations produce focal modulations of β-sheet structure.

Authors:  Matthew Biancalana; Koki Makabe; Shude Yan; Shohei Koide
Journal:  Protein Sci       Date:  2015-03-25       Impact factor: 6.725

6.  High-resolution structure of a self-assembly-competent form of a hydrophobic peptide captured in a soluble beta-sheet scaffold.

Authors:  Koki Makabe; Matthew Biancalana; Shude Yan; Valentina Tereshko; Grzegorz Gawlak; Hélène Miller-Auer; Stephen C Meredith; Shohei Koide
Journal:  J Mol Biol       Date:  2008-03-04       Impact factor: 5.469

7.  Minimalist design of water-soluble cross-beta architecture.

Authors:  Matthew Biancalana; Koki Makabe; Shohei Koide
Journal:  Proc Natl Acad Sci U S A       Date:  2010-02-04       Impact factor: 11.205

8.  Improvement of the crystallizability and expression of an RNA crystallization chaperone.

Authors:  Priyadarshini P Ravindran; Annie Héroux; Jing-Dong Ye
Journal:  J Biochem       Date:  2011-07-23       Impact factor: 3.387

9.  Structures of single-layer β-sheet proteins evolved from β-hairpin repeats.

Authors:  Qingping Xu; Matthew Biancalana; Joanna C Grant; Hsiu-Ju Chiu; Lukasz Jaroszewski; Mark W Knuth; Scott A Lesley; Adam Godzik; Marc-André Elsliger; Ashley M Deacon; Ian A Wilson
Journal:  Protein Sci       Date:  2019-08-02       Impact factor: 6.725

10.  Analysis of O2-binding Sites in Proteins Using Gas-Pressure NMR Spectroscopy: Outer Surface Protein A.

Authors:  Takahiro Kawamura; Takuro Wakamoto; Soichiro Kitazawa; Shun Sakuraba; Tomoshi Kameda; Ryo Kitahara
Journal:  Biophys J       Date:  2017-05-09       Impact factor: 4.033

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