Evidence map›Paper›PMID 29845435›Full record

ArticleJournal of computer-aided molecular design2018

Molecular insight on the non-covalent interactions between carbapenems and L,D-transpeptidase 2 from Mycobacterium tuberculosis: ONIOM study.

Thandokuhle Ntombela, Zeynab Fakhar, Collins U Ibeji, Thavendran Govender, Glenn E M Maguire, Gyanu Lamichhane, Hendrik G Kruger, Bahareh Honarparvar

Abstract read
PubMed Publisher
In one paragraph

Article in Journal of computer-aided molecular design, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
1.5field-weighted citation impact, top 18% 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

6 citing papers in PubMed, 10 citations in OpenAlex.

  1. Article
  2. Article
  3. Evaluating the Performance of a Non-Bonded CuInternational journal of molecular sciences · 2020
    Article
  4. Article
  5. Interaction of Selected Terpenoids FromBioinformatics and biology insights · 2019
    Article
  6. 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

8 authors at 3 institutions in 2 countries.

Thandokuhle NtombelaCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa.
Zeynab FakharDepartment of Chemistry, Faculty of Natural and Agricultural Sciences, University of Pretoria, Lynnwood Road, Hatfield 0002, Pretoria, South Africa.
Collins U IbejiCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa.
Thavendran GovenderCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa.
Glenn E M MaguireCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa.
Gyanu LamichhaneDivision of Infectious Diseases, School of Medicine, Center of Tuberculosis Research, Johns Hopkins University, Baltimore, MD, 21205, USA.
Hendrik G KrugerCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa. kruger@ukzn.ac.za.
Bahareh HonarparvarCatalysis and Peptide Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4001, South Africa. baha.honarparvar@gmail.com.ORCID 0000-0001-9005-2282
University of KwaZulu-Natal · ZAJohns Hopkins University · USUniversity of Pretoria · ZA

Funding

Medical Research Council
6 · The paper itself

Abstract

Tuberculosis remains a dreadful disease that has claimed many human lives worldwide and elimination of the causative agent Mycobacterium tuberculosis also remains elusive. Multidrug-resistant TB is rapidly increasing worldwide; therefore, there is an urgent need for improving the current antibiotics and novel drug targets to successfully curb the TB burden. L,D-Transpeptidase 2 is an essential protein in Mtb that is responsible for virulence and growth during the chronic stage of the disease. Both D,D- and L,D-transpeptidases are inhibited concurrently to eradicate the bacterium. It was recently discovered that classic penicillins only inhibit D,D-transpeptidases, while L,D-transpeptidases are blocked by carbapenems. This has contributed to drug resistance and persistence of tuberculosis. Herein, a hybrid two-layered ONIOM (B3LYP/6-31G+(d): AMBER) model was used to extensively investigate the binding interactions of Ldt

Indexed as

Anti-Bacterial AgentsAntitubercular AgentsBacterial ProteinsCarbapenemsCatalytic DomainHydrogen BondingMycobacterium tuberculosisPeptidyl TransferasesProtein BindingProtein ConformationQuantum TheoryStereoisomerismThermodynamicsAnti-Bacterial AgentsAntitubercular AgentsBacterial ProteinsCarbapenemsPeptidyl TransferasesCarbapenemsL,D-Transpeptidase 2 (LdtMt2)Mycobacterium tuberculosis (M. tuberculosis)Natural bond orbital (NBO)Our own N-layered integrated molecular orbital and molecular mechanics (ONIOM)Quantum theory of atoms in molecules (QTAIM)Tuberculosis (TB)

Identifiers

PMID29845435
OpenAlexW2807109878

What OpenQuestion holds

Textmetadata
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.