Evidence map›Paper›PMID 28369538›Full record

ArticleNucleic acids research2017

Structure of acid deoxyribonuclease.

Armando Varela-Ramirez, Jan Abendroth, Adrian A Mejia, Isabelle Q Phan, Donald D Lorimer, Thomas E Edwards, Renato J Aguilera

Open access · goldAbstract readComparative Study
In one paragraph

Article in Nucleic acids research, 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
0.4field-weighted citation impact, top 47% 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, 32 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Advancements in Aptamer-Driven DNA Nanostructures for Precision Drug Delivery.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024
    Review
  5. Article
  6. Article
  7. Review
  8. Article
  9. Review
  10. A virus changed my life.Molecular biology of the cell · 2022
    Article
  11. Article
  12. 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

7 authors at 3 institutions in 1 country.

Armando Varela-RamirezDepartment of Biological Sciences, Border Biomedical Research Center, The University of Texas at El Paso, El Paso, TX 79968, USA.
Jan AbendrothSeattle Structural Genomics Center for Infectious Disease (SSGCID), Seattle, WA 98110, USA.
Adrian A MejiaDepartment of Biological Sciences, Border Biomedical Research Center, The University of Texas at El Paso, El Paso, TX 79968, USA.
Isabelle Q PhanSeattle Structural Genomics Center for Infectious Disease (SSGCID), Seattle, WA 98110, USA.
Donald D LorimerSeattle Structural Genomics Center for Infectious Disease (SSGCID), Seattle, WA 98110, USA.
Thomas E EdwardsSeattle Structural Genomics Center for Infectious Disease (SSGCID), Seattle, WA 98110, USA.
Renato J AguileraDepartment of Biological Sciences, Border Biomedical Research Center, The University of Texas at El Paso, El Paso, TX 79968, USA.
Beryllium (United States) · USThe University of Texas at El Paso · USCenter for Infectious Disease Research · US

Funding

TCCG12MD007592 · NIMHD · UNIVERSITY OF TEXAS EL PASO · PI KIRKEN, ROBERT A. · 2012 to 2018
$19.4M
RISE Scholars Program at UTEPR25GM069621 · NIGMS · UNIVERSITY OF TEXAS EL PASO · PI AGUILERA, RENATO J · 2004 to 2021
$11.2M
Characterization of novel compounds with anti-lymphoma activitySC3GM103713 · NIGMS · UNIVERSITY OF TEXAS EL PASO · PI AGUILERA, RENATO J · 2013 to 2016
$453k
Characterization of Two Novel Related Drosophila NucleasesSC3GM088069 · NIGMS · UNIVERSITY OF TEXAS EL PASO · PI AGUILERA, RENATO J · 2009 to 2011
$332k
NIGMS NIH HHS R25 GM069621NIGMS NIH HHS SC3 GM088069NIGMS NIH HHS SC3 GM103713NIMHD NIH HHS G12 MD007592
6 · The paper itself

Abstract

Deoxyribonuclease II (DNase II) is also known as acid deoxyribonuclease because it has optimal activity at the low pH environment of lysosomes where it is typically found in higher eukaryotes. Interestingly, DNase II has also been identified in a few genera of bacteria and is believed to have arisen via horizontal transfer. Here, we demonstrate that recombinant Burkholderia thailandensis DNase II is highly active at low pH in the absence of divalent metal ions, similar to eukaryotic DNase II. The crystal structure of B. thailandensis DNase II shows a dimeric quaternary structure which appears capable of binding double-stranded DNA. Each monomer of B. thailandensis DNase II exhibits a similar overall fold as phospholipase D (PLD), phosphatidylserine synthase (PSS) and tyrosyl-DNA phosphodiesterase (TDP), and conserved catalytic residues imply a similar mechanism. The structural and biochemical data presented here provide insights into the atomic structure and catalytic mechanism of DNase II.

Indexed as

Amino Acid SequenceBacterial ProteinsBurkholderiaCatalytic DomainCopperCrystallography, X-RayDNA, BacterialEndodeoxyribonucleasesEukaryotic CellsEvolution, MolecularGene Transfer, HorizontalHydrogen-Ion ConcentrationModels, MolecularMolecular Docking SimulationPhylogenyProkaryotic CellsBacterial ProteinsCopperdeoxyribonuclease IIDNA, BacterialEndodeoxyribonucleasesRecombinant Fusion Proteins

Identifiers

PMID28369538
PMCPMC5449587
OpenAlexW2601487412

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.