Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Looking into DNA recognition: zinc finger binding specificity.

Nucleic acids research - 1 Jan 2004

Paillard Guillaume, Deremble Cyril, Lavery Richard

Abstract excerpt

We present a quantitative, theoretical analysis of the recognition mechanisms used by two zinc finger proteins: Zif268, which selectively binds to GC-rich sequences, and a Zif268 mutant, which binds to a TATA box site. This analysis is based on a recently developed method (ADAPT), which allows binding specificity to be analyzed via the calculation of complexation energies for all possible DNA target sequences....

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Zinc Fingers
Share to Amino Acids
Share to Binding Sites

Methodology Data sources Editorial policy Privacy Delete account & data About Contact Helena Bioinformatics

Share to DNA-Binding Proteins

Share to GC Rich Sequence

Share to Models, Molecular

Share to Protein Binding

Share to TATA Box

Source

Open in PubMed Open full text

Identifiers

PMID: 15613596
DOI: 10.1093/nar/gkh1003
PMCID: PMC545445

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-08.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence. Graph snapshot: 2026-09-29.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Looking into DNA recognition: zinc finger binding specificity.PMID 15613596Read ↗

Exploiting the recognition code for elucidating the mechanism of zinc finger protein-DNA interactions.Semantic proximity Read ↗

Role of protein structure and the role of individual fingers in zinc finger protein-DNA recognition: a molecular dynamics simulation study and free energy calculations.Semantic proximity Read ↗

Towards computational specificity screening of DNA-binding proteins.Semantic proximity Read ↗

Experimentally based contact energies decode interactions responsible for protein-DNA affinity and the role of molecular waters at the binding interface.Semantic proximity Read ↗

Zinc finger protein binding to DNA: an energy perspective using molecular dynamics simulation and free energy calculations on mutants of both zinc finger domains and their specific DNA bases.Semantic proximity Read ↗

Balancing between affinity and speed in target DNA search by zinc-finger proteins via modulation of dynamic conformational ensemble.Semantic proximity Read ↗

Towards understanding the molecular recognition process in prokaryotic zinc-finger domain.Semantic proximity Read ↗

Substitution of DNA-contacting amino acids with functional variants in the Gata-1 zinc finger: a structurally and phylogenetically guided mutagenesis.Semantic proximity Read ↗

Building zinc fingers by selection: toward a therapeutic application.Semantic proximity Read ↗

Toward rules relating zinc finger protein sequences and DNA binding site preferences.Semantic proximity Read ↗

The RNA Polymerase α Subunit Recognizes the DNA Shape of the Upstream Promoter Element.Semantic proximity Read ↗

A theoretical study of the physicochemical mechanisms associated with DNA recognition modulation in artificial zinc-finger proteins.Semantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.