ArticleMethods in enzymology2016
Characterization of How DNA Modifications Affect DNA Binding by C2H2 Zinc Finger Proteins.
Article in Methods in enzymology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 35 citations in OpenAlex.
- Predicting differentially methylated cytosines in TET and DNMT3 knockout mutants via a large language model.Briefings in bioinformatics · 2025Article
- Predicting Differentially Methylated Cytosines in TET and DNMT3 Knockout Mutants via a Large Language Model.bioRxiv : the preprint server for biology · 2024Article
- Physical interaction between MSL2 and CLAMP assures direct cooperativity and prevents competition at composite binding sites.Nucleic acids research · 2023Article
- The effects of maternal care on the developmental transcriptome and metatranscriptome of a wild bee.Communications biology · 2023Article
- Structures of CTCF-DNA complexes including all 11 zinc fingers.Nucleic acids research · 2023Article
- Allosteric autoregulation of DNA binding via a DNA-mimicking protein domain: a biophysical study of ZNF410-DNA interaction using small angle X-ray scattering.Nucleic acids research · 2023Article
- Protocols for protein-DNA binding analysis of a zinc finger transcription factor bound to its cognate promoter.STAR protocols · 2022Article
- HIC2 controls developmental hemoglobin switching by repressing BCL11A transcription.Nature genetics · 2022Article
- Structural basis for human ZBTB7A action at the fetal globin promoter.Cell reports · 2021Article
- Cell-free genomics reveal intrinsic, cooperative and competitive determinants of chromatin interactions.Nucleic acids research · 2021Article
- Clostridioides difficile specific DNA adenine methyltransferase CamA squeezes and flips adenine out of DNA helix.Nature communications · 2021Article
- ZNF410 Uniquely Activates the NuRD Component CHD4 to Silence Fetal Hemoglobin Expression.Molecular cell · 2021Article
- Disorder and cysteines in proteins: A design for orchestration of conformational see-saw and modulatory functions.Progress in molecular biology and translational science · 2020Review
- The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site.Nature communications · 2019Article
- Structural basis of specific DNA binding by the transcription factor ZBTB24.Nucleic acids research · 2019Article
- Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine.Nucleic acids research · 2019Article
- Factor cooperation for chromosome discrimination in Drosophila.Nucleic acids research · 2019Article
- Structural basis for effects of CpA modifications on C/EBPβ binding of DNA.Nucleic acids research · 2019Article
- Epigenetic dysregulation of naive CD4+ T-cell activation genes in childhood food allergy.Nature communications · 2018Article
- Dominant-negative IKZF1 mutations cause a T, B, and myeloid cell combined immunodeficiency.The Journal of clinical investigation · 2018Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Much is known about vertebrate DNA methylation and oxidation; however, much less is known about how modified cytosine residues within particular sequences are recognized. Among the known methylated DNA-binding domains, the Cys2-His2 zinc finger (ZnF) protein superfamily is the largest with hundreds of members, each containing tandem ZnFs ranging from 3 to >30 fingers. We have begun to biochemically and structurally characterize these ZnFs not only on their sequence specificity but also on their sensitivity to various DNA modifications. Rather than following published methods of refolding insoluble ZnF arrays, we have expressed and purified soluble forms of ZnFs, ranging in size from a tandem array of two to six ZnFs, from seven different proteins. We also describe a fluorescence polarization assay to measure ZnFs affinity with oligonucleotides containing various modifications and our approaches for cocrystallization of ZnFs with oligonucleotides.
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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.