Modeling DNA deformations induced by minor groove binding proteins.
Biopolymers. 1999 Apr 15; 49(5):341-53.B

Abstract

Molecular modeling is used to demonstrate that the major structural deformations of DNA caused by four different minor groove binding proteins, TBP, SRY, LEF-1, and PurR, can all be mimicked by stretching the double helix between two 3'-phosphate groups flanking the binding region. This deformation reproduces the widening of the minor groove and the overall bending and unwinding of DNA caused by protein binding. It also reproduces the principal kinks associated with partially intercalated amino acid side chains, observed with such interactions. In addition, when protein binding involves a local transition to an A-like conformation, phosphate neutralization, via the formation of protein-DNA salt bridges, appears to favor the resulting deformation.

Authors+Show Affiliations

Lebrun A

Laboratoire de Biochimie Théorique, CNRS UPR 9080, Institut de Biologie Physico-Chimique, Paris, France.

Lavery R

No affiliation info available

MeSH

Base SequenceDNADNA-Binding ProteinsModels, MolecularNucleic Acid ConformationTATA Box

Pub Type(s)

Journal Article

Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

10101970

Citation

Lebrun, A, and R Lavery. "Modeling DNA Deformations Induced By Minor Groove Binding Proteins." Biopolymers, vol. 49, no. 5, 1999, pp. 341-53.

Lebrun A, Lavery R. Modeling DNA deformations induced by minor groove binding proteins. Biopolymers. 1999;49(5):341-53.

Lebrun, A., & Lavery, R. (1999). Modeling DNA deformations induced by minor groove binding proteins. Biopolymers, 49(5), 341-53.

Lebrun A, Lavery R. Modeling DNA Deformations Induced By Minor Groove Binding Proteins. Biopolymers. 1999 Apr 15;49(5):341-53. PubMed PMID: 10101970.

* Article titles in AMA citation format should be in sentence-case

TY - JOUR T1 - Modeling DNA deformations induced by minor groove binding proteins. AU - Lebrun,A, AU - Lavery,R, PY - 1999/4/2/pubmed PY - 2000/6/20/medline PY - 1999/4/2/entrez SP - 341 EP - 53 JF - Biopolymers JO - Biopolymers VL - 49 IS - 5 N2 - Molecular modeling is used to demonstrate that the major structural deformations of DNA caused by four different minor groove binding proteins, TBP, SRY, LEF-1, and PurR, can all be mimicked by stretching the double helix between two 3'-phosphate groups flanking the binding region. This deformation reproduces the widening of the minor groove and the overall bending and unwinding of DNA caused by protein binding. It also reproduces the principal kinks associated with partially intercalated amino acid side chains, observed with such interactions. In addition, when protein binding involves a local transition to an A-like conformation, phosphate neutralization, via the formation of protein-DNA salt bridges, appears to favor the resulting deformation. SN - 0006-3525 UR - https://www.unboundmedicine.com/medline/citation/10101970/Modeling_DNA_deformations_induced_by_minor_groove_binding_proteins_ L2 - https://doi.org/10.1002/(SICI)1097-0282(19990415)49:5<341::AID-BIP1>3.0.CO;2-C DB - PRIME DP - Unbound Medicine ER -

Tags

Modeling DNA deformations induced by minor groove binding proteins.Biopolymers. 1999 Apr 15; 49(5):341-53.B