Evidence map›Paper›PMID 23935908›Full record

ArticlePloS one2013

A 3-dimensional trimeric β-barrel model for Chlamydia MOMP contains conserved and novel elements of Gram-negative bacterial porins.

Victoria A Feher, Arlo Randall, Pierre Baldi, Robin M Bush, Luis M de la Maza, Rommie E Amaro

Abstract read
In one paragraph

Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.

0numbers the graph read from it
0cells of the map it votes in
28citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

28 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
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  5. Structural Assessment ofVaccines · 2024
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  6. Microorganisms · 2024
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  9. Heterologous Display ofMembranes · 2023
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  10. Article
  11. Overexpression of the Bam Complex Improves the Production ofInternational journal of molecular sciences · 2022
    Article
  12. Article
  13. Ongoing evolution ofMicrobial genomics · 2021
    Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Victoria A FeherDepartment Chemistry and Biochemistry, University of California San Diego, San Diego, California, United States of America.
Arlo Randall
Pierre Baldi
Robin M Bush
Luis M de la Maza
Rommie E Amaro

Funding

A Structural Systems Biology Approach to Drug DiscoveryDP2OD007237 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI AMARO, ROMMIE E · 2010 to 2015
$2.9M
Recombinant C. trachomatis vaccineR01AI067888 · NIAID · UNIVERSITY OF CALIFORNIA-IRVINE · PI DE LA MAZA, LUIS M · 2007 to 2011
$1.9M
Computational Models of Pathogen Evolution and Vaccinat*U01GM076499 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI BUSH, ROBIN M. · 2006 to 2010
$1.5M
Efficient Data Structures and Algorithms for Genomics Sequence DataR01LM010235 · NLM · UNIVERSITY OF CALIFORNIA-IRVINE · PI BALDI, PIERRE · 2010 to 2012
$507k
Predicting and Engineering Molecular Structures for Biomedical ApplicationsK99LM010821 · NLM · UNIVERSITY OF CALIFORNIA-IRVINE · PI RANDALL, ARLO ZAN · 2010 to 2011
$204k
NIAID NIH HHS AI-67888NIAID NIH HHS R01 AI067888NIGMS NIH HHS U01 GM076499NIGMS NIH HHS U01-GM076499NIH HHS DP2 OD007237NIH HHS DP2-OD007237NLM NIH HHS 5T15LM007743NLM NIH HHS K99 LM010821NLM NIH HHS K99LM010821NLM NIH HHS LM010235-01A1NLM NIH HHS R01 LM010235
6 · The paper itself

Abstract

Chlamydia trachomatis is the most prevalent cause of bacterial sexually transmitted diseases and the leading cause of preventable blindness worldwide. Global control of Chlamydia will best be achieved with a vaccine, a primary target for which is the major outer membrane protein, MOMP, which comprises ~60% of the outer membrane protein mass of this bacterium. In the absence of experimental structural information on MOMP, three previously published topology models presumed a16-stranded barrel architecture. Here, we use the latest β-barrel prediction algorithms, previous 2D topology modeling results, and comparative modeling methodology to build a 3D model based on the 16-stranded, trimeric assumption. We find that while a 3D MOMP model captures many structural hallmarks of a trimeric 16-stranded β-barrel porin, and is consistent with most of the experimental evidence for MOMP, MOMP residues 320-334 cannot be modeled as β-strands that span the entire membrane, as is consistently observed in published 16-stranded β-barrel crystal structures. Given the ambiguous results for β-strand delineation found in this study, recent publications of membrane β-barrel structures breaking with the canonical rule for an even number of β-strands, findings of β-barrels with strand-exchanged oligomeric conformations, and alternate folds dependent upon the lifecycle of the bacterium, we suggest that although the MOMP porin structure incorporates canonical 16-stranded conformations, it may have novel oligomeric or dynamic structural changes accounting for the discrepancies observed.

Indexed as

AlgorithmsModels, MolecularAmino Acid SequenceBacterial Outer Membrane ProteinsChlamydia trachomatisEscherichia coliMolecular Sequence DataProtein Structure, SecondaryProtein Structure, TertiarySequence AlignmentStructural Homology, ProteinBacterial Outer Membrane ProteinsOMPA outer membrane proteins

Identifiers

PMID23935908
PMCPMC3723809

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.