Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Conserved Binding Sites01:49

Conserved Binding Sites

Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally analyses the...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

A region of antisense RNA from human p120 cDNA with high homology to mouse p120 cDNA inhibits NIH 3T3 proliferation.

Cancer research·1992
Same author

Increased growth of NIH/3T3 cells by transfection with human p120 complementary DNA and inhibition by a p120 antisense construct.

Cancer research·1992
Same author

Sp1 is essential and its position is important for p120 gene transcription: a 35 bp juxtaposed positive regulatory element enhances transcription 2.5 fold.

Nucleic acids research·1991
Same author

["I don't see medical reasons for a change". Dr. H. Busch, Münster, takes a position on prevention of pneumocystis carinii pneumonia with pentamidine aerosol. Interview by Wilma Mahler].

Fortschritte der Medizin·1991
Same author

Purification of a group of HeLa nuclear proteins that bind to a regulatory element (-1430/-1327) of the human proliferating cell nucleolar protein P120 gene.

Biochemical and biophysical research communications·1991
Same author

Nucleolar protein P120 and its targeting for cancer chemotherapy.

Bollettino della Societa italiana di biologia sperimentale·1991

Related Experiment Video

Updated: Jul 15, 2026

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA)
11:35

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA)

Published on: August 21, 2016

DNA footprint enhancement using tandem binding sites.

W W Zhang1, J Farrés, H Busch

  • 1Department of Pharmacology, Baylor College of Medicine, Houston, TX 77030.

Biotechniques
|December 1, 1991
PubMed
Summary

Researchers enhanced DNA footprinting by using tandem DNA repeats. This method improves the visibility of binding sites on DNA, aiding in molecular studies.

Area of Science:

  • Molecular Biology
  • Genetics
  • Biochemistry

Background:

  • DNase I footprinting is a technique used to identify DNA-protein binding sites.
  • Identifying specific DNA-protein interactions is crucial for understanding gene regulation.
  • Poor DNA footprints can hinder the accurate analysis of these interactions.

Purpose of the Study:

  • To develop a method for enhancing weak DNA footprints in molecular assays.
  • To improve the sensitivity and resolution of DNase I footprinting experiments.

Main Methods:

  • A concatenated DNA fragment with a five-repeat binding site was synthesized.
  • DNase I footprinting was performed on the synthesized DNA fragment.
  • The results were compared to a native DNA sequence with a single binding site.

More Related Videos

Visualization of Surface-tethered Large DNA Molecules with a Fluorescent Protein DNA Binding Peptide
08:51

Visualization of Surface-tethered Large DNA Molecules with a Fluorescent Protein DNA Binding Peptide

Published on: June 23, 2016

High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy
06:38

High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy

Published on: February 7, 2019

Related Experiment Videos

Last Updated: Jul 15, 2026

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA)
11:35

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA)

Published on: August 21, 2016

Visualization of Surface-tethered Large DNA Molecules with a Fluorescent Protein DNA Binding Peptide
08:51

Visualization of Surface-tethered Large DNA Molecules with a Fluorescent Protein DNA Binding Peptide

Published on: June 23, 2016

High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy
06:38

High Sensitivity Measurement of Transcription Factor-DNA Binding Affinities by Competitive Titration Using Fluorescence Microscopy

Published on: February 7, 2019

Main Results:

  • The tandem repeat assay significantly enhanced the DNA footprint compared to a single binding site.
  • The concatenated DNA fragment provided a stronger and clearer footprint under identical conditions.
  • This demonstrates the effectiveness of using repeated binding sites to amplify the footprint signal.

Conclusions:

  • Tandem DNA repeat assays offer a robust approach to improve poor DNA footprints.
  • This technique can enhance the detection of DNA-protein interactions in molecular biology.
  • The method provides a valuable tool for researchers studying DNA binding events.