Evidence map›Paper›PMID 40593790›Full record

ArticleNature communications2025

Structural and functional insights of AmpG in muropeptide transport and multiple β-lactam antibiotics resistance.

Nienping Chang, Hoyoung Kim, Uijin Kim, Yongju Cho, Youngki Yoo, Hyunsook Lee, Ji Won Kim, Min Sung Kim, Jaeho Lee, Young-Lag Cho and 3 more

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Review
  2. Review
  3. 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

13 authors.

Nienping Chang *Department of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea.ORCID http://orcid.org/0000-0002-8584-6413
Hoyoung Kim *Department of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea.ORCID http://orcid.org/0000-0002-1897-4319
Uijin Kim *Department of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea.
Yongju ChoDepartment of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea.
Youngki YooDepartment of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea.
Hyunsook LeeDepartment of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, 50-1 Yonsei-ro, Seodaemun-gu, Seoul, Republic of Korea.
Ji Won KimDepartment of Life Sciences, Pohang University of Science and Technology, 77 Cheongam-ro, Nam-gu, Pohang, Gyeongbuk, Republic of Korea.ORCID http://orcid.org/0000-0002-4098-2198
Min Sung KimDepartment of Biotechnology, College of Life Science and Biotechnology, Yonsei University, Seoul, Republic of Korea.ORCID http://orcid.org/0000-0002-1784-4803
Jaeho LeeLigaChem Biosciences Inc, 10, Gukjegwahak 10-ro, Yuseong-gu, Daejeon, Republic of Korea.
Young-Lag ChoLigaChem Biosciences Inc, 10, Gukjegwahak 10-ro, Yuseong-gu, Daejeon, Republic of Korea.
Kitae KimResearch Institute of Molecular Alchemy, Gyeongsang National University, 501 Jinju-daero, Jinju-si, Republic of Korea.
Dongeun YongDepartment of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, 50-1 Yonsei-ro, Seodaemun-gu, Seoul, Republic of Korea. DEYONG@yuhs.ac.
Hyun-Soo ChoDepartment of Systems Biology and Division of Life Sciences, Yonsei University, 50 Yonsei-ro, Seoul, Republic of Korea. hscho8@gmail.com.ORCID http://orcid.org/0000-0003-4067-4715

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Anhydromuropeptide permease (AmpG) is a transporter protein located in the inner membrane of certain gram -negative bacteria, involved in peptidoglycan (PG) recycling and β-lactamase induction. Decreased AmpG function reduces resistance of antibiotic-resistant bacteria to β-lactam antibiotics. Therefore, AmpG-targeting inhibitors are promising 'antibiotic adjuvants'. However, as the tertiary structure of AmpG has not yet been identified, the development of targeted inhibitors remains challenging. We present four cryo-electron microscopy (cryo-EM) structures: the apo-inward and apo-outward state structures and the inward-occluded and outward states complexed with the substrate GlcNAc-1,6-anhMurNAc. Through functional analysis and molecular dynamics (MD) simulations, we identified motif A, which stabilizes the outward state, substrate-binding pocket, and protonation-related residues. Based on the structure of AmpG and our experimental results, we propose a muropeptide transport mechanism for AmpG. A deeper understanding of its structure and transport mechanism provides a foundation for the development of antibiotic adjuvants.

Indexed as

Anti-Bacterial AgentsBacterial Proteinsbeta-Lactam Resistancebeta-LactamsDrug Resistance, Multiple, BacterialEscherichia coli ProteinsMembrane Transport Proteinsbeta Lactam AntibioticsBiological TransportCryoelectron MicroscopyEscherichia coliMolecular Dynamics SimulationAnti-Bacterial AgentsBacterial Proteinsbeta Lactam Antibioticsbeta-LactamsEscherichia coli ProteinsMembrane Transport Proteins

Identifiers

PMID40593790
PMCPMC12214514

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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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 Socratic graph.