Evidence map›Paper›PMID 29772230›Full record

ArticleBiochemical and biophysical research communications2018

Replacing C189 in the bZIP domain of Zta with S, T, V, or A changes DNA binding specificity to four types of double-stranded DNA.

Sreejana Ray, Desiree Tillo, Nima Assad, Aniekanabasi Ufot, Christopher Deppmann, Stewart R Durell, Aleksey Porollo, Charles Vinson

Open access · greenAbstract read
In one paragraph

Article in Biochemical and biophysical research communications, 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
0.5field-weighted citation impact, top 32% 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, 8 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. The bZIP mutant CEBPB (V285A) has sequence specific DNA binding propensities similar to CREB1.Biochimica et biophysica acta. Gene regulatory mechanisms · 2019
    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 1 country.

Sreejana RayLaboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA.
Desiree TilloLaboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA.
Nima AssadLaboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA.
Aniekanabasi UfotLaboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA.
Christopher DeppmannDepartment of Biology, University of Virginia, Charlottesville, VA, 22903, USA; Department of Cell Biology, University of Virginia, Charlottesville, VA, 22903, USA; Department of Biomedical Engineering, University of Virginia, Charlottesville, VA, 22903, USA.
Stewart R DurellLaboratory of Cell Biology, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA.
Aleksey PorolloCenter for Autoimmune Genomics and Etiology and Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, 45229, USA.
Charles VinsonLaboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, MD, 20892, USA. Electronic address: vinsonc@mail.nih.gov.
National Institutes of Health · USCincinnati Children's Hospital Medical Center · USUniversity of Virginia · US

Funding

Gene Regulation and Function: The B-ZIP ProteinsZIABC005271 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI VINSON, CHARLES · 2009 to 2019
$11.2M
Effects of Cytosine Modifications on Transcription Factor BindingZICBC011724 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI DURELL, STEWART · 2016 to 2023
$961k
Intramural NIH HHS Z99 CA999999
6 · The paper itself

Abstract

Zta is a bZIP transcription factor (TF) in the Epstein-Barr virus that binds unmethylated and methylated DNA sequences. Substitution of cysteine 189 of Zta to serine (Zta(C189S)) results in a virus that is unable to execute the lytic cycle, which was attributed to a change in binding to methylated DNA sequences. To learn more about the role of this position in defining sequence-specific DNA binding, we mutated cysteine 189 to four other amino acids, producing Zta(C189S), Zta(C189T), Zta(C189A), and Zta(C189V) mutants. Zta and mutants were used in protein binding microarray (PBM) experiments to evaluate sequence-specific DNA binding to four types of double-stranded DNA (dsDNA): 1) with cytosine in both strands (DNA(C|C)), 2) with 5-methylcytosine (5mC) in one strand and cytosine in the second strand (DNA(5mC|C)), 3) with 5-hydroxymethylcytosine (5hmC) in one strand and cytosine in the second strand (DNA(5hmC|C)), and 4) with both cytosines in all CG dinucleotides containing 5mC (DNA(5mCG)). Zta(C189S) and Zta(C189T) bound the TRE (AP-1) motif (TGA

Indexed as

Amino Acid Substitution5-MethylcytosineBase SequenceBasic-Leucine Zipper Transcription FactorsDNADNA MethylationMutant ProteinsNucleotide MotifsPolymorphism, Single NucleotideProtein BindingProtein DomainsStructure-Activity RelationshipTrans-Activators5-hydroxymethylcytosine5-MethylcytosineBasic-Leucine Zipper Transcription FactorsBZLF1 protein, Herpesvirus 4, HumanDNAMutant ProteinsTrans-ActivatorsbZIPCytosine methylationDNA bindingTranscription factorZta

Identifiers

PMID29772230
PMCPMC6417095
OpenAlexW2804952266

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.