Circular dichroism to determine binding mode and affinity of ligand-DNA interactions

被引:283
作者
Garbett, Nichola C. [1 ]
Ragazzon, Patricia A. [1 ]
Chaires, Jonathan B. [1 ]
机构
[1] Univ Louisville, James Graham Brown Canc Ctr, Louisville, KY 40202 USA
关键词
D O I
10.1038/nprot.2007.475
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Circular dichroism (CD) is a useful technique for an assessment of DNA-binding mode, being a more accessible, low-resolution complement to NMR and X-ray diffraction methods. Ligand-DNA interactions can be studied by virtue of the interpretation of induced ligand CD signals resulting from the coupling of electric transition moments of the ligand and DNA bases within the asymmetric DNA environment. This protocol outlines methods to determine the binding mode and affinity of ligand-DNA interactions and takes approximately 7.5 h.
引用
收藏
页码:3166 / 3172
页数:7
相关论文
共 32 条
[1]   CIRCULAR-DICHROISM AND TEMPERATURE-OPTICAL DENSITY STUDIES ON CONFORMATION OF POLYNUCLEOTIDE-ETHIDIUM BROMIDE COMPLEXES [J].
AKTIPIS, S ;
MARTZ, WW .
BIOCHEMISTRY, 1974, 13 (01) :112-118
[2]  
ARDHAMMAR M, 2000, CIRCULAR DISCHROISM, pMJU
[3]   ROTATORY PROPERTIES OF MOLECULES CONTAINING 2 PEPTIDE GROUPS - THEORY [J].
BAYLEY, PM ;
NIELSEN, EB ;
SCHELLMA.JA .
JOURNAL OF PHYSICAL CHEMISTRY, 1969, 73 (01) :228-&
[4]  
BISHOP GR, 2002, PROTOCOLS NUCL ACID, V2
[5]   STRUCTURAL EFFECTS ON THE CIRCULAR-DICHROISM OF ETHIDIUM ION NUCLEIC-ACID COMPLEXES [J].
DAHL, KS ;
PARDI, A ;
TINOCO, I .
BIOCHEMISTRY, 1982, 21 (11) :2730-2737
[6]   CIRCULAR DICHROISM IN ULTRAVIOLET OF AMINOACRIDINES AND ETHIDIUM BROMIDE BOUND TO DNA [J].
DALGLEISH, DG ;
PEACOCKE, AR ;
KEY, G ;
HARVEY, C .
BIOPOLYMERS, 1971, 10 (10) :1853-+
[7]  
Drake AF, 2001, PRACT APPROACH SER, P123
[8]  
Eriksson M, 2001, METHOD ENZYMOL, V340, P68
[9]   Singular value decomposition of 3-D DNA melting curves reveals complexity in the melting process [J].
Haq, I ;
Chowdhury, BZ ;
Chaires, JB .
EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, 1997, 26 (06) :419-426
[10]   Interactions of intercalative and minor groove binding ligands with triplex poly(dA)center dot[poly(dT)](2) and with duplex poly(dA)center dot poly(dT) and poly[d(A-T)](2) studied by CD, LD, and normal absorption [J].
Kim, HK ;
Kim, JM ;
Kim, SK ;
Rodger, A ;
Norden, B .
BIOCHEMISTRY, 1996, 35 (04) :1187-1194