Evidence map›Paper›PMID 28668125›Full record

ArticleMethods in enzymology2017

Detection of Reaction Intermediates in Mg

Nadine L Samara, Yang Gao, Jinjun Wu, Wei Yang

Open access · greenAbstract read
In one paragraph

Article in Methods in enzymology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
2.3field-weighted citation impact, top 13% 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

13 citing papers in PubMed, 19 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Review
  6. Visualizing the three-metal-ion-dependent cleavage of a mutagenic nucleotide.Proceedings of the National Academy of Sciences of the United States of America · 2022
    Article
  7. Article
  8. Review
  9. Multiple deprotonation paths of the nucleophile 3'-OH in the DNA synthesis reaction.Proceedings of the National Academy of Sciences of the United States of America · 2021
    Article
  10. Article
  11. Article
  12. Cation trafficking propels RNA hydrolysis.Nature structural & molecular biology · 2018
    Article
  13. 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

4 authors at 2 institutions in 1 country.

Nadine L SamaraLaboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, MD, United States; Section on Biological Chemistry, NIDCR, National Institutes of Health, Bethesda, MD, United States.
Yang GaoLaboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, MD, United States.
Jinjun WuLaboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, MD, United States.
Wei YangLaboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, MD, United States. Electronic address: wei.yang@nih.gov.
National Institute of Diabetes and Digestive and Kidney Diseases · USNational Institutes of Health · US

Funding

Structural and mechanistic studies of translesion DNA synthesisZIADK036146 · NIDDK · NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES · PI YANG, WEI · 2009 to 2025
$7.7M
Structural and mechanistic studies of RNase H and HIV reverse transcriptaseZIADK036144 · NIDDK · NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES · PI YANG, WEI · 2009 to 2021
$4.2M
Structural and mechanistic studies of RNase H and HIV reverse transcriptaseZ01DK036144 · NIDDK · NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES · PI YANG, WEI · 2007 to 2008
$601k
Intramural NIH HHS Z01 DK036144Intramural NIH HHS ZIA DK036144Intramural NIH HHS ZIA DK036146
6 · The paper itself

Abstract

Structures of enzyme-substrate/product complexes have been studied for over four decades but have been limited to either before or after a chemical reaction. Recently using in crystallo catalysis combined with X-ray diffraction, we have discovered that many enzymatic reactions in nucleic acid metabolism require additional metal ion cofactors that are not present in the substrate or product state. By controlling metal ions essential for catalysis, the in crystallo approach has revealed unprecedented details of reaction intermediates. Here we present protocols used for successful studies of Mg

Indexed as

DNA ReplicationRNA StabilityAnimalsBacillusCrystallography, X-RayDeoxyribonuclease (Pyrimidine Dimer)DNADNA-Directed DNA PolymeraseHumansMagnesiumModels, MolecularRibonuclease HRibonucleasesRNAY-Family DNA PolymerasesDeoxyribonuclease (Pyrimidine Dimer)DNADNA-Directed DNA PolymeraseMagnesiumRad30 proteinRibonuclease Hribonuclease HIRibonucleasesRNAY-Family DNA PolymerasesCatalysisMetal ionsPhosphoryl and nucleotidyl transferTransition state

Identifiers

PMID28668125
PMCPMC6097844
OpenAlexW2611675703

What OpenQuestion holds

Textmetadata
LicenceTDM
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.