Origins of specificity in protein-DNA recognition
Specific interactions between proteins and DNA are fundamental to many biological
processes. In this review, we provide a revised view of protein-DNA interactions that …
processes. In this review, we provide a revised view of protein-DNA interactions that …
[5] DNA structure from A to Z
RE Dickerson - Methods in Enzymology, 1992 - Elsevier
Publisher Summary This chapter shows sixteen-base-pair lengths of A-, B-, and Z-DNA on a
uniform scale, as a comparison and an illustration of their distinguishing features. Mean …
uniform scale, as a comparison and an illustration of their distinguishing features. Mean …
The role of DNA shape in protein–DNA recognition
The recognition of specific DNA sequences by proteins is thought to depend on two types of
mechanism: one that involves the formation of hydrogen bonds with specific bases, primarily …
mechanism: one that involves the formation of hydrogen bonds with specific bases, primarily …
Solution structure of the human telomeric repeat d [AG3 (T2AG3) 3] G-tetraplex
Background: Repeats of O n sequences are detected as single strand overhangs at the ends
of eukaryotic chromosomes together with associated binding proteins. Such telomere …
of eukaryotic chromosomes together with associated binding proteins. Such telomere …
3DNA: a software package for the analysis, rebuilding and visualization of three‐dimensional nucleic acid structures
XJ Lu, WK Olson - Nucleic acids research, 2003 - academic.oup.com
We present a comprehensive software package, 3DNA, for the analysis, reconstruction and
visualization of three‐dimensional nucleic acid structures. Starting from a coordinate file in …
visualization of three‐dimensional nucleic acid structures. Starting from a coordinate file in …
[HTML][HTML] Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins
Members of transcription factor families typically have similar DNA binding specificities yet
execute unique functions in vivo. Transcription factors often bind DNA as multiprotein …
execute unique functions in vivo. Transcription factors often bind DNA as multiprotein …
Conformational analysis of nucleic acids revisited: Curves+
We describe Curves+, a new nucleic acid conformational analysis program which is
applicable to a wide range of nucleic acid structures, including those with up to four strands …
applicable to a wide range of nucleic acid structures, including those with up to four strands …
Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape
DNA sequence is a major determinant of the binding specificity of transcription factors (TFs)
for their genomic targets. However, eukaryotic cells often express, at the same time, TFs with …
for their genomic targets. However, eukaryotic cells often express, at the same time, TFs with …
3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures
XJ Lu, WK Olson - Nature protocols, 2008 - nature.com
We present a set of protocols showing how to use the 3DNA suite of programs to analyze,
rebuild and visualize three-dimensional nucleic-acid structures. The software determines a …
rebuild and visualize three-dimensional nucleic-acid structures. The software determines a …
Crystal structure of an IHF-DNA complex: a protein-induced DNA U-turn
PA Rice, S Yang, K Mizuuchi, HA Nash - Cell, 1996 - cell.com
Integration host factor (IHF) is a small heterodimeric protein that specifically binds to DNA
and functions as an architectural factor in many cellular processes in prokaryotes. Here, we …
and functions as an architectural factor in many cellular processes in prokaryotes. Here, we …