Literature DB >> 28423910

Conformational Preference of Serogroup B Salmonella O Polysaccharide in Presence and Absence of the Monoclonal Antibody Se155-4.

Mingjun Yang1, Raphael Simon2, Alexander D MacKerell1.   

Abstract

Salmonella infection is a major public health problem worldwide. Antibodies directed toward the O polysaccharide (OPS) of S. Typhimurium, a serogroup B nontyphoidal Salmonella serovar, have protected against fatal infection in animal models. The OPS is known to undergo O-acetylation, though the impact of these modifications on antibody binding is poorly understood. Using molecular simulations, we assessed the conformational properties and antigen-antibody interactions of deacetylated and O-acetylated S. Typhimurium OPS when bound by monoclonal anti-OPS IgG Se155-4. Our findings indicate that (i) the α-d-abequose (8) monosaccharide makes important interactions with Se155-4, (ii) the deacetylated form binds to the antibody in two conformations, (iii) the acetyl group at α-l-rhamnose (5) traps the acetylated O-antigenic saccharide in one of those two conformations when bound to the antibody; (iv) the dominant conformation sampled by both unbound saccharides only occurs in the deacetylated-antibody complex; and (v) both unbound saccharides sample the second bound conformation to a small extent (2-4%). These observations provide insights into the conformational preference of an antigenic saccharide when bound to a well-characterized specific monoclonal antibody, and suggest possible important properties of vaccine induced antibodies following immunization with live attenuated and OPS-based subunit vaccines.

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Year:  2016        PMID: 28423910      PMCID: PMC5407322          DOI: 10.1021/acs.jpcb.6b08955

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  41 in total

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Review 2.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
Journal:  J Comput Chem       Date:  2009-07-30       Impact factor: 3.376

Review 3.  Recognition of a carbohydrate antigenic determinant of Salmonella by an antibody.

Authors:  M Cygler; S Wu; A Zdanov; D R Bundle; D R Rose
Journal:  Biochem Soc Trans       Date:  1993-05       Impact factor: 5.407

4.  Delineating the conformational flexibility of trisaccharides from NMR spectroscopy experiments and computer simulations.

Authors:  Mingjun Yang; Thibault Angles d'Ortoli; Elin Säwén; Madhurima Jana; Göran Widmalm; Alexander D MacKerell
Journal:  Phys Chem Chem Phys       Date:  2016-06-27       Impact factor: 3.676

5.  Recognition of a cell-surface oligosaccharide of pathogenic Salmonella by an antibody Fab fragment.

Authors:  M Cygler; D R Rose; D R Bundle
Journal:  Science       Date:  1991-07-26       Impact factor: 47.728

6.  Optimization of the additive CHARMM all-atom protein force field targeting improved sampling of the backbone φ, ψ and side-chain χ(1) and χ(2) dihedral angles.

Authors:  Robert B Best; Xiao Zhu; Jihyun Shim; Pedro E M Lopes; Jeetain Mittal; Michael Feig; Alexander D Mackerell
Journal:  J Chem Theory Comput       Date:  2012-07-18       Impact factor: 6.006

7.  Additive empirical force field for hexopyranose monosaccharides.

Authors:  Olgun Guvench; Shannon N Greene; Ganesh Kamath; John W Brady; Richard M Venable; Richard W Pastor; Alexander D Mackerell
Journal:  J Comput Chem       Date:  2008-11-30       Impact factor: 3.376

8.  Monoclonal Antibodies of a Diverse Isotype Induced by an O-Antigen Glycoconjugate Vaccine Mediate In Vitro and In Vivo Killing of African Invasive Nontyphoidal Salmonella.

Authors:  Yun Shan Goh; Simon Clare; Francesca Micoli; Allan Saul; Pietro Mastroeni; Calman A MacLennan
Journal:  Infect Immun       Date:  2015-07-13       Impact factor: 3.441

9.  Enhanced conformational sampling using replica exchange with concurrent solute scaling and hamiltonian biasing realized in one dimension.

Authors:  Mingjun Yang; Jing Huang; Alexander D MacKerell
Journal:  J Chem Theory Comput       Date:  2015-06-09       Impact factor: 6.006

Review 10.  Global burden of invasive nontyphoidal Salmonella disease, 2010(1).

Authors:  Trong T Ao; Nicholas A Feasey; Melita A Gordon; Karen H Keddy; Frederick J Angulo; John A Crump
Journal:  Emerg Infect Dis       Date:  2015-06       Impact factor: 6.883

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  3 in total

1.  CHARMM Drude Polarizable Force Field for Glycosidic Linkages Involving Pyranoses and Furanoses.

Authors:  Asaminew H Aytenfisu; Mingjun Yang; Alexander D MacKerell
Journal:  J Chem Theory Comput       Date:  2018-05-04       Impact factor: 6.006

2.  Conformational Heterogeneity of the HIV Envelope Glycan Shield.

Authors:  Mingjun Yang; Jing Huang; Raphael Simon; Lai-Xi Wang; Alexander D MacKerell
Journal:  Sci Rep       Date:  2017-06-30       Impact factor: 4.379

3.  Modeling of pneumococcal serogroup 10 capsular polysaccharide molecular conformations provides insight into epitopes and observed cross-reactivity.

Authors:  Nicole I Richardson; Michelle M Kuttel; Neil Ravenscroft
Journal:  Front Mol Biosci       Date:  2022-08-08
  3 in total

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