Evidence map›Paper›PMID 25458356›Full record

ReviewAdvances in protein chemistry and structural biology2014

Applications of quantum mechanical/molecular mechanical methods to the chemical insertion step of DNA and RNA polymerization.

Lalith Perera, William A Beard, Lee G Pedersen, Samuel H Wilson

Abstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Advances in protein chemistry and structural biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed, 5 citations in OpenAlex.

  1. Review
  2. Review
  3. Article
  4. 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

4 authors at 2 institutions in 1 country.

Lalith PereraLaboratory of Structural Biology, National Institution of Environmental Health Sciences, Research Triangle Park, North Carolina, USA. Electronic address: pereral2@niehs.nih.gov.
William A BeardLaboratory of Structural Biology, National Institution of Environmental Health Sciences, Research Triangle Park, North Carolina, USA.
Lee G PedersenDepartment of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Samuel H WilsonLaboratory of Structural Biology, National Institution of Environmental Health Sciences, Research Triangle Park, North Carolina, USA.
National Institute of Environmental Health Sciences · USUniversity of North Carolina at Chapel Hill · US

Funding

THE ROLE OF THE VITAMIN K CYCLE IN COAGULATIONP01HL006350 · NHLBI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI MONROE, DOUGALD M · 1985 to 2013
$17.5M
Macromolecular ModelingZICES043010 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI COPELAND, WILLIAM · 2012 to 2025
$5.7M
Nucleic Acid Enzymes--Pol Beta And Base Repair EnzymesZ01ES050158 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI WILSON, SAMUEL H · 1997 to 2008
$2.8M
MACROMOLECULAR MODELING AND CARCINOGENESISZ01ES043010 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI DARDEN, THOMAS A · 1986 to 2008
$1.2M
STRUCTURE-ACTIVITY RELATIONSHIPS OF HIV-1 REVERSE TRANSCRIPTASEZ01ES050161 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI WILSON, SAMUEL H · 1997 to 2008
$241k
Intramural NIH HHS Z01 ES043010Intramural NIH HHS Z01 ES050158Intramural NIH HHS Z01 ES050161Intramural NIH HHS Z99 ES999999Intramural NIH HHS ZIC ES043010NHLBI NIH HHS HL-06350NHLBI NIH HHS P01 HL006350NIEHS NIH HHS Z01-ES043010NIEHS NIH HHS Z01-ES050158NIEHS NIH HHS Z01-ES050161
6 · The paper itself

Abstract

We review theoretical attempts to model the chemical insertion reactions of nucleoside triphosphates catalyzed by the nucleic acid polymerases using combined quantum mechanical/molecular mechanical methodology. Due to an existing excellent database of high-resolution X-ray crystal structures, the DNA polymerase β system serves as a useful template for discussion and comparison. The convergence of structures of high-quality complexes and continued developments of theoretical techniques suggest a bright future for understanding the global features of nucleic acid polymerization.

Indexed as

Molecular Dynamics SimulationBinding SitesBiocatalysisCrystallography, X-RayDNADNA-Directed RNA PolymerasesDNA Polymerase betaHumansPolymerizationProtein BindingProtein Structure, SecondaryProtein Structure, TertiaryQuantum TheoryRNADNADNA-Directed RNA PolymerasesDNA Polymerase betaRNADNA polymeraseDNA repairEnzyme catalysisNucleotide insertionPolymerase βProton transferQM/MMReaction pathsRNA polymerase

Identifiers

PMID25458356
PMCPMC5573153
OpenAlexW169890619

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.