PMID- 27392082
OWN - NLM
STAT- MEDLINE
DCOM- 20180326
LR  - 20181202
IS  - 1538-0254 (Electronic)
IS  - 0739-1102 (Linking)
VI  - 35
IP  - 10
DP  - 2017 Aug
TI  - Characterization of the binding of neomycin/paromomycin sulfate with DNA using 
      acridine orange as fluorescence probe and molecular docking technique.
PG  - 2077-2089
LID - 10.1080/07391102.2016.1207564 [doi]
AB  - The binding of neomycin sulfate (NS)/paromomycin sulfate (PS) with DNA was 
      investigated by fluorescence quenching using acridine orange (AO) as a 
      fluorescence probe. Fluorescence lifetime, FT-IR, circular dichroism (CD), 
      relative viscosity, ionic strength, DNA melting temperature, and molecular 
      docking were performed to explore the binding mechanism. The binding constant of 
      NS/PS and DNA was 6.70 x 10(3)/1.44 x 10(3) L mol(-1) at 291 K. The values of 
      DeltaH(theta), DeltaS(theta), and DeltaG(theta) suggested that van der Waals force or hydrogen bond might 
      be the main binding force between NS/PS and DNA. The results of Stern-Volmer 
      plots and fluorescence lifetime measurements all revealed that NS/PS quenching 
      the fluorescence of DNA-AO was static in nature. FT-IR indicated that the 
      interaction between DNA and NS/PS did occur. The relative viscosity and melting 
      temperature of DNA were almost unchanged when NS/PS was introduced to the 
      solution. The fluorescence intensity of NS/PS-DNA-AO was decreased with the 
      increase in the ionic strength. For CD spectra of DNA, the intensity of positive 
      band at nearly 275 nm was decreased and that of negative band at nearly 245 nm 
      was increased with the increase in the concentration of NS/PS. The binding 
      constant of NS/PS with double-stranded DNA (dsDNA) was larger than that of NS/PS 
      with single-stranded DNA (ssDNA). From these studies, the binding mode of NS/PS 
      with DNA was evaluated to be groove binding. The results of molecular docking 
      further indicated that NS/PS could enter into the minor groove in the A-T rich 
      region of DNA.
FAU - Zhou, Huifeng
AU  - Zhou H
AD  - a College of Chemistry , Changchun Normal University , Changchun 130032 , P.R. 
      China.
FAU - Bi, Shuyun
AU  - Bi S
AD  - a College of Chemistry , Changchun Normal University , Changchun 130032 , P.R. 
      China.
FAU - Wang, Yu
AU  - Wang Y
AD  - a College of Chemistry , Changchun Normal University , Changchun 130032 , P.R. 
      China.
FAU - Wu, Jun
AU  - Wu J
AD  - a College of Chemistry , Changchun Normal University , Changchun 130032 , P.R. 
      China.
LA  - eng
PT  - Journal Article
DEP - 20160717
PL  - England
TA  - J Biomol Struct Dyn
JT  - Journal of biomolecular structure & dynamics
JID - 8404176
RN  - 0 (DNA, Single-Stranded)
RN  - 0 (Fluorescent Dyes)
RN  - 0 (Solutions)
RN  - 61JJC8N5ZK (Paromomycin)
RN  - 9007-49-2 (DNA)
RN  - 91080-16-9 (calf thymus DNA)
RN  - F30N4O6XVV (Acridine Orange)
RN  - I16QD7X297 (Neomycin)
SB  - IM
MH  - Acridine Orange/*chemistry
MH  - Animals
MH  - Binding Sites
MH  - Cattle
MH  - DNA/*chemistry
MH  - DNA, Single-Stranded/*chemistry
MH  - Fluorescent Dyes/*chemistry
MH  - Hydrogen Bonding
MH  - Kinetics
MH  - Molecular Docking Simulation
MH  - Neomycin/*chemistry
MH  - Nucleic Acid Conformation
MH  - Nucleic Acid Denaturation
MH  - Osmolar Concentration
MH  - Paromomycin/*chemistry
MH  - Solutions
MH  - Temperature
MH  - Thermodynamics
MH  - Viscosity
OTO - NOTNLM
OT  - DNA
OT  - acridine orange
OT  - groove binding
OT  - neomycin sulfate
OT  - paromomycin sulfates
EDAT- 2016/07/09 06:00
MHDA- 2018/03/27 06:00
CRDT- 2016/07/09 06:00
PHST- 2016/07/09 06:00 [pubmed]
PHST- 2018/03/27 06:00 [medline]
PHST- 2016/07/09 06:00 [entrez]
AID - 10.1080/07391102.2016.1207564 [doi]
PST - ppublish
SO  - J Biomol Struct Dyn. 2017 Aug;35(10):2077-2089. doi: 
      10.1080/07391102.2016.1207564. Epub 2016 Jul 17.