Protein-induced DNA linking number change by sequence-specific DNA binding proteins and its biological effects

Biophysics Reviews
Fenfei Leng

Abstract

Sequence-specific DNA-binding proteins play essential roles in many fundamental biological events such as DNA replication, recombination, and transcription. One common feature of sequence-specific DNA-binding proteins is to introduce structural changes to their DNA recognition sites including DNA-bending and DNA linking number change (ΔLk). In this article, I review recent progress in studying protein-induced ΔLk by several sequence-specific DNA-binding proteins, such as E. coli cAMP receptor protein (CRP) and lactose repressor (LacI). It was demonstrated recently that protein-induced ΔLk is an intrinsic property for sequence-specific DNA-binding proteins and does not correlate to protein-induced other structural changes, such as DNA bending. For instance, although CRP bends its DNA recognition site by 90°, it was not able to introduce a ΔLk to it. However, LacI was able to simultaneously bend and introduce a ΔLk to its DNA binding sites. Intriguingly, LacI also constrained superhelicity within LacI-lac O1 complexes if (-) supercoiled DNA templates were provided. I also discuss how protein-induced ΔLk help sequence-specific DNA-binding proteins regulate their biological functions. For example, it was shown recently that LacI ut...Continue Reading

References

Jan 1, 1992·Trends in Biochemical Sciences·J H WhiteW R Bauer
Jan 1, 1991·Methods in Enzymology·D M CrothersT E Shrader
Jun 20, 1991·Journal of Molecular Biology·H Y Wu, L F Liu
Oct 26, 1990·Science·R B Lobell, R F Schleif
Jan 1, 1988·Cell Biophysics·H V WesterhoffM Gellert
Jan 1, 1989·Annual Review of Genetics·S Adhya
May 1, 1989·Genes & Development·C ZwiebS Adhya
Oct 1, 1986·Proceedings of the National Academy of Sciences of the United States of America·M DodsonR McMacken
Aug 22, 1986·Science·M C Mossing, M T Record
Jul 15, 1988·Science·J H WhiteW R Bauer
Mar 11, 1987·Nucleic Acids Research·C B Harley, R P Reynolds
May 20, 1986·Journal of Molecular Biology·J H White, W R Bauer
Oct 11, 1972·Nature: New Biology·J M Saucier, J C Wang
Sep 20, 1974·Nature·J C WangS Bourgeois
Oct 11, 1984·Nucleic Acids Research·R KimS H Kim
Jan 22, 1982·Nucleic Acids Research·A Kolb, H Buc
May 24, 1984·Nature·C A FrederickJ M Rosenberg
Jan 1, 1983·Cold Spring Harbor Symposia on Quantitative Biology·R Kim, S H Kim
Jun 1, 1995·Journal of Bacteriology·P R JensenH V Westerhoff
Oct 1, 1993·Molecular Microbiology·M J Weickert, S Adhya
Mar 26, 1996·Biochemistry·Y Shi, J M Berg
Mar 22, 1996·Journal of Molecular Biology·J MüllerB Müller-Hill
Mar 1, 1996·Science·K S Matthews
Apr 1, 1996·Molecular Microbiology·M van WorkumH V Westerhoff
Sep 6, 1996·Journal of Molecular Biology·L C LutterC R Calladine

❮ Previous
Next ❯

Citations

May 17, 2017·Biophysics Reviews·Cris Dos Remedios

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.