Evidence map›Paper›PMID 25892120›Full record

ArticleNature communications2015

Crystal structure of the Alcanivorax borkumensis YdaH transporter reveals an unusual topology.

Jani Reddy Bolla, Chih-Chia Su, Jared A Delmar, Abhijith Radhakrishnan, Nitin Kumar, Tsung-Han Chou, Feng Long, Kanagalaghatta R Rajashankar, Edward W Yu

Abstract read
In one paragraph

Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing 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

27 citing papers in PubMed.

  1. Review
  2. Article
  3. TheScience advances · 2024
    Article
  4. The complete catalog of antimicrobial resistance secondary active transporters inComputational and structural biotechnology journal · 2024
    Article
  5. Article
  6. Article
  7. Article
  8. Metabolites · 2021
    Review
  9. Article
  10. Review
  11. Article
  12. Elevator-type mechanisms of membrane transport.Biochemical Society transactions · 2020
    Review
  13. Article
  14. Structure and Mechanism of the Divalent Anion/Na⁺ Symporter.International journal of molecular sciences · 2019
    Review
  15. Structural models of the NaPi-II sodium-phosphate cotransporters.Pflugers Archiv : European journal of physiology · 2019
    Review
  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

9 authors.

Jani Reddy BollaDepartment of Chemistry, Iowa State University, Ames, Iowa 50011, USA.
Chih-Chia SuDepartment of Physics and Astronomy, Iowa State University, Ames, Iowa 50011, USA.
Jared A DelmarDepartment of Physics and Astronomy, Iowa State University, Ames, Iowa 50011, USA.
Abhijith RadhakrishnanDepartment of Chemistry, Iowa State University, Ames, Iowa 50011, USA.
Nitin KumarDepartment of Chemistry, Iowa State University, Ames, Iowa 50011, USA.
Tsung-Han ChouDepartment of Physics and Astronomy, Iowa State University, Ames, Iowa 50011, USA.
Feng LongDepartment of Physics and Astronomy, Iowa State University, Ames, Iowa 50011, USA.
Kanagalaghatta R RajashankarNE-CAT and Department of Chemistry and Chemical Biology, Cornell University, Building 436E, Argonne National Laboratory, 9700S. Cass Avenue, Argonne. Illinois 60439, USA.
Edward W Yu1] Department of Chemistry, Iowa State University, Ames, Iowa 50011, USA [2] Department of Physics and Astronomy, Iowa State University, Ames, Iowa 50011, USA.

Funding

Overall EvaluationP41GM103403 · NIGMS · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2012 to 2017
$14.3M
Metal ion export in bacteriaR01GM086431 · NIGMS · IOWA STATE UNIVERSITY · PI YU, EDWARD W · 2010 to 2013
$1.1M
NIGMS NIH HHS GM103403NIGMS NIH HHS P41 GM103403NIGMS NIH HHS R01 GM086431NIGMS NIH HHS R01GM086431
6 · The paper itself

Abstract

The potential of the folic acid biosynthesis pathway as a target for the development of antibiotics has been clinically validated. However, many pathogens have developed resistance to these antibiotics, prompting a re-evaluation of potential drug targets within the pathway. The ydaH gene of Alcanivorax borkumensis encodes an integral membrane protein of the AbgT family of transporters for which no structural information was available. Here we report the crystal structure of A. borkumensis YdaH, revealing a dimeric molecule with an architecture distinct from other families of transporters. YdaH is a bowl-shaped dimer with a solvent-filled basin extending from the cytoplasm to halfway across the membrane bilayer. Each subunit of the transporter contains nine transmembrane helices and two hairpins that suggest a plausible pathway for substrate transport. Further analyses also suggest that YdaH could act as an antibiotic efflux pump and mediate bacterial resistance to sulfonamide antimetabolite drugs.

Indexed as

AlcanivoraceaeAnti-Infective AgentsBacterial ProteinsCarrier ProteinsEscherichia coliFolic AcidGene DeletionGene Expression Regulation, BacterialModels, MolecularMutagenesis, Site-DirectedProtein ConformationSulfamethazineAnti-Infective AgentsBacterial ProteinsCarrier ProteinsFolic AcidSulfamethazine

Identifiers

PMID25892120
PMCPMC4410182

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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.