Structure-based design of a second-generation Lyme disease vaccine based on a C-terminal fragment of Borrelia burgdorferi OspA.

Abstract:

:Here, we describe a structure-based approach to reduce the size of an antigen protein for a subunit vaccine. Our method consists of (i) determining the three-dimensional structure of an antigen, (ii) identifying protective epitopes, (iii) generation of an antigen fragment that contains the protective epitope, and (iv) rational design to compensate for destabilization caused by truncation. Using this approach we have successfully developed a second-generation Lyme disease vaccine. Outer surface protein A (OspA) from the Lyme disease spirochete Borrelia burgdorferi elicits protective immunity that blocks transmission of Borrelia from the tick vector to the vaccinated animal, and thus has been a focus of vaccine development. OspA has two globular domains that are connected via a unique single-layer beta-sheet. All anti-OspA monoclonal antibodies that block Borrelia transmission bind to conformational epitopes in the C-terminal domain of OspA, suggesting the possibility of using the C-terminal domain alone as a recombinant protein-based vaccine. The removal of ineffective parts from the OspA antigen may reduce side effects and lead to a safer vaccine. We prepared a C-terminal fragment of OspA by removing approximately 45% of residues from the N terminus. Although the fragment retained the native conformation and affinity to a protective antibody, its vaccine efficacy and conformational stability were significantly reduced with respect to full-length OspA. We successfully stabilized the fragment by replacing amino acid residues involved in buried salt-bridges with residues promoting hydrophobic interactions. The mutations promoted the vaccine efficacy of the redesigned fragment to a level comparable to that of the full-length protein, demonstrating the importance of the antigen stability for OspA's vaccine efficacy. Our strategy should be useful for further refining OspA-based vaccines and developing recombinant vaccines for other diseases.

journal_name

J Mol Biol

authors

Koide S,Yang X,Huang X,Dunn JJ,Luft BJ

doi

10.1016/j.jmb.2005.04.066

keywords:

subject

Has Abstract

pub_date

2005-07-08 00:00:00

pages

290-9

issue

2

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(05)00499-7

journal_volume

350

pub_type

杂志文章
  • Molecular determinants for substrate specificity of the ligand-binding protein OpuAC from Bacillus subtilis for the compatible solutes glycine betaine and proline betaine.

    abstract::Compatible solutes play a decisive role in the defense of microorganisms against changes in temperature and increases in osmolarity in their natural habitats. In Bacillus subtilis, the substrate-binding protein (SBP)-dependent ABC-transporter OpuA serves for the uptake of the compatible solutes glycine betaine (GB) an...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.12.085

    authors: Horn C,Sohn-Bösser L,Breed J,Welte W,Schmitt L,Bremer E

    更新日期:2006-03-24 00:00:00

  • Dual modes of modification of hepatitis A virus 3C protease by a serine-derived beta-lactone: selective crystallization and formation of a functional catalytic triad in the active site.

    abstract::Hepatitis A virus (HAV) 3C proteinase is a member of the picornain cysteine proteases responsible for the processing of the viral polyprotein, a function essential for viral maturation and infectivity. This and its structural similarity to other 3C and 3C-like proteases make it an attractive target for the development...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.09.074

    authors: Yin J,Bergmann EM,Cherney MM,Lall MS,Jain RP,Vederas JC,James MN

    更新日期:2005-12-09 00:00:00

  • Translation driven by picornavirus IRES is hampered from Sindbis virus replicons: rescue by poliovirus 2A protease.

    abstract::Alphavirus replicons are very useful for analyzing different aspects of viral molecular biology. They are also useful tools in the development of new vaccines and highly efficient expression of heterologous genes. We have investigated the translatability of Sindbis virus (SV) subgenomic mRNA bearing different 5'-untra...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.07.014

    authors: Sanz MA,Welnowska E,Redondo N,Carrasco L

    更新日期:2010-09-10 00:00:00

  • Integration host factor binds specifically to sites in the ilvGMEDA operon in Escherichia coli.

    abstract::Integration host factor (IHF) of Escherichia coli is a histone-like protein that is involved both in site-specific recombination and in regulating the expression of a number of phage and bacterial genes. We have shown previously that transcription of the ilvGMEDA operon in E. coli is greatly reduced in IHF mutants. We...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90212-4

    authors: Tsui P,Freundlich M

    更新日期:1988-10-05 00:00:00

  • Structures of DegQ from Legionella pneumophila Define Distinct ON and OFF States.

    abstract::HtrA (high-temperature requirement A) family proteins play important roles in protein-quality control processes in the bacterial periplasm. A common feature of all members of this family is their modular organization comprising a chymotrypsin-like protease domain and at least one PDZ (postsynaptic density of 95 kDa, d...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2015.06.023

    authors: Schubert A,Wrase R,Hilgenfeld R,Hansen G

    更新日期:2015-08-28 00:00:00

  • Ligand binding energy and enzyme efficiency from reductions in protein dynamics.

    abstract::Tetrameric rabbit muscle glyceraldehyde 3-phosphate dehydrogenase (GAPDH; EC 1.2.1.12) binds successively four molecules of its cofactor (NAD+) with affinities of ca 10(11) M(-1), 10(9) M(-1), 10(7) M(-1), and 10(5) M(-1). The reduction in the dynamics of the protein is greatest upon binding the first NAD+ molecule. S...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.11.015

    authors: Williams DH,Zhou M,Stephens E

    更新日期:2006-01-27 00:00:00

  • The promoter of the H1zero histone gene contains a DNA element bound by retinoic acid receptors.

    abstract::Retinoic-acid mediated differentiation of F9 cells is accompanied by an increased transcription of the histone H1zero gene. This increase is an early response after addition of retinoic acid, suggesting a direct effect of the hormone on transcription of the gene. We show now that the promoter of histone H1zero contain...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1555

    authors: Mader S,Thiele K,Breuer B,Alonso A

    更新日期:1994-09-09 00:00:00

  • Energetics of lesion recognition by a DNA repair protein: thermodynamic characterization of formamidopyrimidine-glycosylase (Fpg) interactions with damaged DNA duplexes.

    abstract::As part of an overall effort to map the energetic landscape of the base excision repair pathway, we report the first thermodynamic characterization of repair enzyme binding to lesion-containing duplexes. Isothermal titration calorimetry (ITC) in conjunction with spectroscopic measurements and protease protection assay...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00365-6

    authors: Minetti CA,Remeta DP,Zharkov DO,Plum GE,Johnson F,Grollman AP,Breslauer KJ

    更新日期:2003-05-16 00:00:00

  • Analysis of the human Alu Ya-lineage.

    abstract::The Alu Ya-lineage is a group of related, short interspersed elements (SINEs) found in primates. This lineage includes subfamilies Ya1-Ya5, Ya5a2 and others. Some of these subfamilies are still actively mobilizing in the human genome. We have analyzed 2482 elements that reside in the human genome draft sequence and fo...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.07.016

    authors: Otieno AC,Carter AB,Hedges DJ,Walker JA,Ray DA,Garber RK,Anders BA,Stoilova N,Laborde ME,Fowlkes JD,Huang CH,Perodeau B,Batzer MA

    更新日期:2004-09-03 00:00:00

  • Oligosaccharide preferences of beta1,4-galactosyltransferase-I: crystal structures of Met340His mutant of human beta1,4-galactosyltransferase-I with a pentasaccharide and trisaccharides of the N-glycan moiety.

    abstract::beta-1,4-Galactosyltransferase-I (beta4Gal-T1) transfers galactose from UDP-galactose to N-acetylglucosamine (GlcNAc) residues of the branched N-linked oligosaccharide chains of glycoproteins. In an N-linked biantennary oligosaccharide chain, one antenna is attached to the 3-hydroxyl-(1,3-arm), and the other to the 6-...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.07.050

    authors: Ramasamy V,Ramakrishnan B,Boeggeman E,Ratner DM,Seeberger PH,Qasba PK

    更新日期:2005-10-14 00:00:00

  • Concerning the axial rotational flexibility of the Fab regions of immunoglobulin G.

    abstract::By electron microscopy, we have observed immunocomplexes with both negative stain and in amorphous ice using monoclonal antibodies directed against one of the 24 subunits of scorpion haemocyanin. A copy of this subunit occurs at each of the corners of the square-shaped haemocyanin molecule. Three distinct orientations...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(89)90484-1

    authors: Wade RH,Taveau JC,Lamy JN

    更新日期:1989-03-20 00:00:00

  • Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: structure-based assessment of amino acid variation.

    abstract::We have developed a formalism and a computational method for analyzing the potential functional consequences of non-synonymous single nucleotide polymorphisms. Our approach uses a structural model and phylogenetic information to derive a selection of structure and sequence-based features serving as indicators of an am...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4510

    authors: Chasman D,Adams RM

    更新日期:2001-03-23 00:00:00

  • Distinctive features of the two classes of eukaryotic peptide deformylases.

    abstract::Peptide deformylases (PDFs) are essential enzymes of the N-terminal protein processing pathway of eubacteria. The recent discovery of two types of PDFs in higher plants, PDF1A and PDF1B, and the detection of PDF1A in humans, have raised questions concerning the importance of deformylation in eukaryotes. Here, we have ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5175

    authors: Serero A,Giglione C,Meinnel T

    更新日期:2001-12-07 00:00:00

  • The human IgE-encoding transcriptome to assess antibody repertoires and repertoire evolution.

    abstract::Upon encounter with antigen, the B lymphocyte population responds by producing a diverse set of antigen-specific antibodies of various isotypes. The vast size of the responding populations makes it very difficult to study clonal evolution and repertoire composition occurring during these processes in humans. Here, we ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.06.062

    authors: Andréasson U,Flicker S,Lindstedt M,Valenta R,Greiff L,Korsgren M,Borrebaeck CA,Ohlin M

    更新日期:2006-09-15 00:00:00

  • Tau Modulates VGluT1 Expression.

    abstract::Tau displacement from microtubules is the first step in the onset of tauopathies and is followed by toxic protein aggregation. However, other non-canonical functions of Tau might have a role in these pathologies. Here, we demonstrate that a small amount of Tau localizes in the nuclear compartment and accumulates in bo...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.01.023

    authors: Siano G,Varisco M,Caiazza MC,Quercioli V,Mainardi M,Ippolito C,Cattaneo A,Di Primio C

    更新日期:2019-02-15 00:00:00

  • The human telomeric protein TRF1 specifically recognizes nucleosomal binding sites and alters nucleosome structure.

    abstract::Telomeres are dynamic nucleoprotein structures that cap the ends of eukaryotic chromosomes. In humans, the long (TTAGGG)(n) double-stranded telomeric DNA repeats are bound specifically by the two related proteins TRF1 and TRF2, and are organized in nucleosomes. Whereas the role of TRF1 and TRF2 in telomeric function h...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.04.071

    authors: Galati A,Rossetti L,Pisano S,Chapman L,Rhodes D,Savino M,Cacchione S

    更新日期:2006-07-07 00:00:00

  • Filamentous phage IKe mRNAs conserve form and function despite divergence in regulatory elements.

    abstract::As a means of determining whether there has been selection to conserve the basic pattern of filamentous phage mRNAs, the major mRNAs representing genes II to VIII have been defined for a phage distantly related to the Ff group specific for Escherichia coli hosts bearing F pili. Phage IKe has a genome with 55% identity...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0766

    authors: Stump MD,Madison-Antenucci S,Kokoska RJ,Steege DA

    更新日期:1997-02-14 00:00:00

  • Isolation and characterization of visible light-sensitive mutants of Escherichia coli K12.

    abstract::Six mutants of Escherichia coli K12 that are sensitive to visible light have been isolated. Five of them, including an amber mutant, are defective in a gene that maps near 11 minutes on the linkage map of the chromosome, and this gene has been designated visA. The sixth mutant, which was isolated from bacteria that ca...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(91)90180-e

    authors: Miyamoto K,Nakahigashi K,Nishimura K,Inokuchi H

    更新日期:1991-06-05 00:00:00

  • E. coli RpsO mRNA decay: RNase E processing at the beginning of the coding sequence stimulates poly(A)-dependent degradation of the mRNA.

    abstract::The rpsO mRNA of E. coli encoding ribosomal protein S15 is destabilized by poly(A) tails posttranscriptionally added by poly(A)polymerase I. We demonstrate here that polyadenylation also contributes to the rapid degradation of mRNA fragments generated by RNase E. It was already known that an RNase E cleavage occurring...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.2547

    authors: Hajnsdorf E,Régnier P

    更新日期:1999-03-05 00:00:00

  • TM0486 from the hyperthermophilic anaerobe Thermotoga maritima is a thiamin-binding protein involved in response of the cell to oxidative conditions.

    abstract::The COG database was used for a comparative genome analysis with genomes from anaerobic and aerobic microorganisms with the aim of identifying proteins specific to the anaerobic way of life. A total of 33 COGs were identified, five of which correspond to proteins of unknown function. We focused our study on TM0486 fro...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.05.014

    authors: Dermoun Z,Foulon A,Miller MD,Harrington DJ,Deacon AM,Sebban-Kreuzer C,Roche P,Lafitte D,Bornet O,Wilson IA,Dolla A

    更新日期:2010-07-16 00:00:00

  • Decomposition of the free energy of a system in terms of specific interactions. Implications for theoretical and experimental studies.

    abstract::Recently, a number of methods have been proposed that are designed to extract contributions to the change in free energy associated with a given perturbation or mutation of a protein originating from specific residue-residue or atom-atom interactions, both based on theoretical calculations and on experimental data. We...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1430

    authors: Mark AE,van Gunsteren WF

    更新日期:1994-07-08 00:00:00

  • Unassigned or nonsense codons in Micrococcus luteus.

    abstract::We previously reported that in Micrococcus luteus, a Gram-positive eubacterium with high genomic G + C content, certain codons ending with A did not appear in coding frames, including termination sites, and tRNAs that translate these codons were not detected. These facts suggest that at least some of them are unassign...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1993.1125

    authors: Kano A,Ohama T,Abe R,Osawa S

    更新日期:1993-03-05 00:00:00

  • Proteasome Structure and Assembly.

    abstract::The eukaryotic 26S proteasome is a large multisubunit complex that degrades the majority of proteins in the cell under normal conditions. The 26S proteasome can be divided into two subcomplexes: the 19S regulatory particle and the 20S core particle. Most substrates are first covalently modified by ubiquitin, which the...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2017.05.027

    authors: Budenholzer L,Cheng CL,Li Y,Hochstrasser M

    更新日期:2017-11-10 00:00:00

  • Monitoring Ligand-Induced Protein Ordering in Drug Discovery.

    abstract::While the gene for p53 is mutated in many human cancers causing loss of function, many others maintain a wild-type gene but exhibit reduced p53 tumor suppressor activity through overexpression of the negative regulators, Mdm2 and/or MdmX. For the latter mechanism of loss of function, the activity of endogenous p53 can...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2016.01.016

    authors: Grace CR,Ban D,Min J,Mayasundari A,Min L,Finch KE,Griffiths L,Bharatham N,Bashford D,Kiplin Guy R,Dyer MA,Kriwacki RW

    更新日期:2016-03-27 00:00:00

  • Phi-analysis at the experimental limits: mechanism of beta-hairpin formation.

    abstract::The 37-residue Formin-binding protein, FBP28, is a canonical three-stranded beta-sheet WW domain. Because of its small size, it is so insensitive to chemical denaturation that it is barely possible to determine accurately a denaturation curve, as the transition spans 0-7 M guanidinium hydrochloride (GdmCl). It is also...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.05.050

    authors: Petrovich M,Jonsson AL,Ferguson N,Daggett V,Fersht AR

    更新日期:2006-07-21 00:00:00

  • Protein titration in the crystal state.

    abstract::Proteins are complex structures whose overall stability critically depends on a delicate balance of numerous interactions of similar strength, which are markedly influenced by their environment. Here, we present an analysis of the effect of pH on a protein structure in the crystalline state using RNase A as a model sy...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.3093

    authors: Berisio R,Lamzin VS,Sica F,Wilson KS,Zagari A,Mazzarella L

    更新日期:1999-10-01 00:00:00

  • Ancylostoma ceylanicum excretory-secretory protein 2 adopts a netrin-like fold and defines a novel family of nematode proteins.

    abstract::Hookworms are human parasites that have devastating effects on global health, particularly in underdeveloped countries. Ancylostoma ceylanicum infects humans and animals, making it a useful model organism to study disease pathogenesis. A. ceylanicum excretory-secretory protein 2 (AceES-2), a highly immunoreactive mole...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2011.02.033

    authors: Kucera K,Harrison LM,Cappello M,Modis Y

    更新日期:2011-04-22 00:00:00

  • Docking of a single phage lambda to its membrane receptor maltoporin as a time-resolved event.

    abstract::We have been able to observe the first step in bacteriophage infection, the docking of phage lambda to its membrane receptor maltoporin, at the single-particle level. High-resolution conductance recording from a single trimeric maltoporin channel reconstituted into a planar lipid bilayer has allowed detection of the s...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.04.034

    authors: Gurnev PA,Oppenheim AB,Winterhalter M,Bezrukov SM

    更新日期:2006-06-23 00:00:00

  • Design of a highly reactive HDV ribozyme sequence uncovers facilitation of RNA folding by alternative pairings and physiological ionic strength.

    abstract::The hepatitis delta virus (HDV) ribozyme is a self-cleaving RNA that resides in the HDV genome and regulates its replication. The native fold of the ribozyme is complex, having two pseudoknots. Earlier work implicated four non-native pairings in slowing pseudoknot formation: Alt 1, Alt 2, Alt 3, and Alt P1. The goal o...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.05.071

    authors: Brown TS,Chadalavada DM,Bevilacqua PC

    更新日期:2004-08-13 00:00:00

  • Atomic resolution (1.0 A) crystal structure of Fusarium solani cutinase: stereochemical analysis.

    abstract::X-ray data have been recorded to 1.0 A resolution from a crystal of Fusarium solani cutinase using synchrotron radiation and an imaging-plate scanner. The anisotropic treatment of thermal motion led to a fivefold increase in accuracy and to a considerable quality improvement in the electron density maps with respect t...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1000

    authors: Longhi S,Czjzek M,Lamzin V,Nicolas A,Cambillau C

    更新日期:1997-05-16 00:00:00