Factors affecting nucleolytic efficiency of some ternary metal complexes with DNA binding and recognition domains. Crystal and molecular structure of Zn(phen)(edda).
The binding selectivity of the M(phen)(edda) (M=Cu, Co, Ni, Zn; phen=1,10-phenanthroline, edda=ethylenediaminediacetic acid) complexes towards ds(CG)(6), ds(AT)(6) and ds(CGCGAATTCGCG) B-form oligonucleotide duplexes were studied by CD spectroscopy and molecular modeling. The binding mode is intercalation and there is selectivity towards AT-sequence and stacking preference for A/A parallel or diagonal adjacent base steps in their intercalation. The nucleolytic properties of these complexes were investigated and the factors affecting the extent of cleavage were determined to be: concentration of complex, the nature of metal(II) ion, type of buffer, pH of buffer, incubation time, incubation temperature, and the presence of hydrogen peroxide or ascorbic acid as exogenous reagents. The fluorescence property of these complexes and its origin were also investigated. The crystal structure of the Zn(phen)(edda) complex is reported in which the zinc atom displays a distorted trans-N(4)O(2) octahedral geometry; the crystal packing features double layers of complex molecules held together by extensive hydrogen bonding that inter-digitate with adjacent double layers via pi...pi interactions between 1,10-phenanthroline residues. The structure is compared with that of the recently described copper(II) analogue and, with the latter, included in molecular modeling.
Seng
Hoi-Ling
HL
Faculty of Engineering and Science, Universiti Tunku Abdul Rahman, 53300 Kuala Lumpur, Malaysia.
Ong
Han-Kiat Alan
HK
Rahman
Raja Noor Zaliha Raja Abd
RN
Yamin
Bohari M
BM
Tiekink
Edward R T
ER
Tan
Kong Wai
KW
Maah
Mohd Jamil
MJ
Caracelli
Ignez
I
Ng
Chew Hee
CH
D001665:Binding Sites; D002942:Circular Dichroism; D003035:Cobalt / Q000737:chemistry; D003300:Copper / Q000737:chemistry; D018360:Crystallography, X-Ray; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D053837:DNA Cleavage; D004492:Edetic Acid / Q000031:analogs & derivatives* / Q000737:chemistry; D006860:Hydrogen Bonding; D007364:Intercalating Agents / Q000737:chemistry; D008958:Models, Molecular; D009532:Nickel / Q000737:chemistry*; D009942:Organometallic Compounds / Q000737:chemistry*; D010618:Phenanthrolines / Q000737:chemistry*; D013050:Spectrometry, Fluorescence; D015032:Zinc / Q000737:chemistry*
D007364:Intercalating Agents; D009942:Organometallic Compounds; D010618:Phenanthrolines; D003035:Cobalt; C026058:EDDA; D003300:Copper; D009532:Nickel; D004247:DNA; D004492:Edetic Acid; D015032:Zinc; C025205:1,10-phenanthroline