scholarly journals DNA oligonucleotides with A, T, G or C opposite an abasic site: structure and dynamics

2007 ◽  
Vol 36 (1) ◽  
pp. 253-262 ◽  
Author(s):  
Jingyang Chen ◽  
François-Yves Dupradeau ◽  
David A. Case ◽  
Christopher J. Turner ◽  
JoAnne Stubbe
Keyword(s):  
Abasic Site ◽  
Site Structure ◽  
Structure And Dynamics ◽  
Dna Oligonucleotides

Active site structure and dynamics of cytochromec3 fromDesulfovibrio gigas immobilized on electrodes

Biopolymers ◽  
2002 ◽  
Vol 67 (4-5) ◽  
pp. 331-334 ◽  
Author(s):  
A. Jalila ◽  
Simaan Daniel ◽  
H. Murgida ◽  
Peter Hildebrandt
Keyword(s):  
Active Site ◽  
Site Structure ◽  
Structure And Dynamics ◽  
Active Site Structure

scholarly journals The HistamineN-Methyltransferase T105I Polymorphism Affects Active Site Structure and Dynamics†

Biochemistry ◽  
2008 ◽  
Vol 47 (3) ◽  
pp. 893-901 ◽  
Author(s):  
Karen Rutherford ◽  
W. W. Parson ◽  
Valerie Daggett
Keyword(s):  
Active Site ◽  
Site Structure ◽  
Structure And Dynamics ◽  
Active Site Structure

Structure and Dynamics of DNA Duplexes Containing a Cluster of Mutagenic 8-Oxoguanine and Abasic Site Lesions

2014 ◽  
Vol 426 (7) ◽  
pp. 1524-1538 ◽  
Author(s):  
Jan Zálešák ◽  
Morgane Lourdin ◽  
Lumίr Krejčί ◽  
Jean-François Constant ◽  
Muriel Jourdan
Keyword(s):  
Dna Duplexes ◽  
Abasic Site ◽  
Structure And Dynamics

scholarly journals Structure and Dynamics of DNA-bound Ruthenium Complexes

2014 ◽  
Vol 70 (a1) ◽  
pp. C1377-C1377
Author(s):  
James Hall ◽  
Kyra O'Sullivan ◽  
Hakan Niyazi ◽  
Juan Sanchez-Weatherby ◽  
Graeme Winter ◽  
...  
Keyword(s):  
Molecular Structure ◽  
Photodynamic Therapy ◽  
Binding Sites ◽  
Structural Information ◽  
Ruthenium Complexes ◽  
Binding Mode ◽  
Sequence Specificity ◽  
Structure And Dynamics ◽  
Dna Oligonucleotides ◽  
High Level

Since the 1980s, there has been great interest in how polypyridyl ruthenium complexes bind to DNA. This is due to their photoactive properties[1], which have great potential in photodynamic therapy, as they are able to damage DNA upon photoirradiation. However, there has been significant debate over the precise binding sites of these complexes due to the lack of definitive structural information. Presented here are several high resolution crystal structures showing how these complexes can bind to short DNA oligonucleotides. With each new structure we are able to answer questions about the binding geometry and step specificity which could explain the observations obtained from biophysical measurements in solution. We have shown that the complexes bind by intercalation as well as confirming a previously proposed binding mode, semi-intercalation. We have also shown that the complexes bind with a high level of sequence specificity[2], preferring TA steps over AT and CG and that each enantiomer can bind with a different orientation[3] (Figure 1). One obvious advantage to working with crystal samples is that they possess a well defined molecular structure, which can be determined and is therefore known. Spectroscopic experiments, with data collected in the picosecond and nanosecond timescale, will also be reported with these systems.

Covalent alkylation of dna with duocarmycin A. Identification of abasic site structure

1990 ◽  
Vol 31 (49) ◽  
pp. 7197-7200 ◽  
Author(s):  
Hiroshi Sugiyama ◽  
Masahiro Hosoda ◽  
Isao Saito ◽  
Akira Asai ◽  
Hiromitsu Saito
Keyword(s):  
Abasic Site ◽  
Site Structure

Nucleosome dynamics

2006 ◽  
Vol 73 ◽  
pp. 109-119 ◽  
Author(s):  
Chris Stockdale ◽  
Michael Bruno ◽  
Helder Ferreira ◽  
Elisa Garcia-Wilson ◽  
Nicola Wiechens ◽  
...  
Keyword(s):  
High Resolution ◽  
Chromatin Structure ◽  
Current Knowledge ◽  
Dynamic Properties ◽  
Structure And Dynamics ◽  
Nucleosome Dynamics ◽  
Sharp Focus ◽  
Recent Advances ◽  
Insight Into ◽  
Chromatin Structure And Dynamics

In the 30 years since the discovery of the nucleosome, our picture of it has come into sharp focus. The recent high-resolution structures have provided a wealth of insight into the function of the nucleosome, but they are inherently static. Our current knowledge of how nucleosomes can be reconfigured dynamically is at a much earlier stage. Here, recent advances in the understanding of chromatin structure and dynamics are highlighted. The ways in which different modes of nucleosome reconfiguration are likely to influence each other are discussed, and some of the factors likely to regulate the dynamic properties of nucleosomes are considered.

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