Evidence map›Paper›PMID 34518546›Full record

ArticleNature communications2021

Structure and function relationship of OqxB efflux pump from Klebsiella pneumoniae.

Nagakumar Bharatham, Purnendu Bhowmik, Maho Aoki, Ui Okada, Sreevalli Sharma, Eiki Yamashita, Anirudh P Shanbhag, Sreenath Rajagopal, Teby Thomas, Maitrayee Sarma and 6 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
44citing papers in PubMed, 1 pooled it
3.6field-weighted citation impact, top 5% of its field
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

44 citing papers in PubMed, 1 synthesis or guideline pooled it, 71 citations in OpenAlex.

  1. Pathogens (Basel, Switzerland) · 2024
    Pooled it
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  12. Review
  13. Phenotypic and genome-based characterization ofFrontiers in microbiology · 2026
    Article
  14. Article
  15. Review
  16. Article
  17. Article
  18. Review
  19. Efflux-Mediated Resistance inAntibiotics (Basel, Switzerland) · 2025
    Review
  20. Review
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

16 authors at 5 institutions in 2 countries.

Nagakumar BharathamBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0003-4904-7726
Purnendu BhowmikBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0001-5614-8600
Maho AokiDepartment of Life Science and Technology, Tokyo Institute of Technology, Yokohama, Japan.ORCID http://orcid.org/0000-0002-2650-9476
Ui OkadaDepartment of Life Science and Technology, Tokyo Institute of Technology, Yokohama, Japan.ORCID http://orcid.org/0000-0001-7633-9308
Sreevalli SharmaBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0001-6055-7853
Eiki YamashitaInstitute for Protein Research, Osaka University, Suita, Osaka, Japan.ORCID http://orcid.org/0000-0002-4278-0039
Anirudh P ShanbhagBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0002-0498-6431
Sreenath RajagopalBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.
Teby ThomasSt. John's Research Institute, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0002-3505-977X
Maitrayee SarmaBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.
Riya NarjariBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.
Savitha NagarajSt. John's Medical Hospital, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0003-4996-4874
Vasanthi RamachandranBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0003-2496-179X
Nainesh KatagihallimathBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.
Santanu DattaBugworks Research India Pvt. Ltd., Centre for Cellular and Molecular Platforms, GKVK, Bellary Rd, Bengaluru, Karnataka, India.ORCID http://orcid.org/0000-0001-5335-5276
Satoshi MurakamiDepartment of Life Science and Technology, Tokyo Institute of Technology, Yokohama, Japan. murakami@bio.titech.ac.jp.ORCID http://orcid.org/0000-0001-5553-7663
Cellworks Research (India) · INUniversity of Trans-Disciplinary Health Sciences and Technology · INTokyo Institute of Technology · JPSt.John's Medical College Hospital · INProtein Research Foundation · JP

Funding

Combating resistant superbugs by understanding the molecular determinants of target site penetration and bindingR01AI136803 · NIAID · UNIVERSITY OF FLORIDA · PI BULITTA, JURGEN BERND · 2018 to 2022
$5.7M
NIAID NIH HHS R01 AI136803
6 · The paper itself

Abstract

OqxB is an RND (Resistance-Nodulation-Division) efflux pump that has emerged as a factor contributing to the antibiotic resistance in Klebsiella pneumoniae. OqxB underwent horizontal gene transfer and is now seen in other Gram-negative bacterial pathogens including Escherichia coli, Enterobacter cloacae and Salmonella spp., further disseminating multi-drug resistance. In this study, we describe crystal structure of OqxB with n-dodecyl-β-D-maltoside (DDM) molecules bound in its substrate-binding pocket, at 1.85 Å resolution. We utilize this structure in computational studies to predict the key amino acids contributing to the efflux of fluoroquinolones by OqxB, distinct from analogous residues in related transporters AcrB and MexB. Finally, our complementation assays with mutated OqxB and minimum inhibitory concentration (MIC) experiments with clinical isolates of E. coli provide further evidence that the predicted structural features are indeed involved in ciprofloxacin efflux.

Indexed as

Anti-Bacterial AgentsBacterial ProteinsBinding SitesCrystallography, X-RayDrug Resistance, Multiple, BacterialKlebsiella pneumoniaeMembrane Transport ProteinsMicrobial Sensitivity TestsMolecular Docking SimulationMolecular Dynamics SimulationProtein BindingProtein ConformationProtein MultimerizationStructure-Activity RelationshipAnti-Bacterial AgentsBacterial ProteinsMembrane Transport Proteins

Identifiers

PMID34518546
PMCPMC8437966
OpenAlexW3199332366

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.