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Sequence, structure prediction, and epitope analysis of the polymorphic membrane protein family in Chlamydia trachomatis

Author

Listed:
  • Patrick W Cervantes
  • Brent W Segelke
  • Edmond Y Lau
  • Beverly V Robinson
  • Abisola Abisoye-Ogunniyan
  • Sukumar Pal
  • Luis M de la Maza
  • Matthew A Coleman
  • Patrik D’haeseleer

Abstract

The polymorphic membrane proteins (Pmps) are a family of autotransporters that play an important role in infection, adhesion and immunity in Chlamydia trachomatis. Here we show that the characteristic GGA(I,L,V) and FxxN tetrapeptide repeats fit into a larger repeat sequence, which correspond to the coils of a large beta-helical domain in high quality structure predictions. Analysis of the protein using structure prediction algorithms provided novel insight to the chlamydial Pmp family of proteins. While the tetrapeptide motifs themselves are predicted to play a structural role in folding and close stacking of the beta-helical backbone of the passenger domain, we found many of the interesting features of Pmps are localized to the side loops jutting out from the beta helix including protease cleavage, host cell adhesion, and B-cell epitopes; while T-cell epitopes are predominantly found in the beta-helix itself. This analysis more accurately defines the Pmp family of Chlamydia and may better inform rational vaccine design and functional studies.

Suggested Citation

  • Patrick W Cervantes & Brent W Segelke & Edmond Y Lau & Beverly V Robinson & Abisola Abisoye-Ogunniyan & Sukumar Pal & Luis M de la Maza & Matthew A Coleman & Patrik D’haeseleer, 2024. "Sequence, structure prediction, and epitope analysis of the polymorphic membrane protein family in Chlamydia trachomatis," PLOS ONE, Public Library of Science, vol. 19(6), pages 1-22, June.
  • Handle: RePEc:plo:pone00:0304525
    DOI: 10.1371/journal.pone.0304525
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    References listed on IDEAS

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    1. Denisse L. Leyton & Matthew D. Johnson & Rajiv Thapa & Gerard H.M. Huysmans & Rhys A. Dunstan & Nermin Celik & Hsin-Hui Shen & Dorothy Loo & Matthew J. Belousoff & Anthony W. Purcell & Ian R. Henderso, 2014. "A mortise–tenon joint in the transmembrane domain modulates autotransporter assembly into bacterial outer membranes," Nature Communications, Nature, vol. 5(1), pages 1-11, September.
    2. Naozumi Hiranuma & Hahnbeom Park & Minkyung Baek & Ivan Anishchenko & Justas Dauparas & David Baker, 2021. "Improved protein structure refinement guided by deep learning based accuracy estimation," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
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