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Article history: A new charge transfer (CT) complex [(DAPH)+(DNB)] consisting of 2,6-diaminopyridine (DAP) as donor
Received 16 July 2012 and 3,5-dinitrobenzoic acid (DNB-H) as acceptor, was synthesized and characterized by FTIR, 1H and 13C
Received in revised form 1 September 2012 NMR, ESI mass spectroscopic and X-ray crystallographic techniques. The hydrogen bonding (N+–H O)
Accepted 4 September 2012
plays an important role to consolidate the cation and anion together. CT complex shows a considerable
Available online 17 September 2012
interaction with Calf thymus DNA. The CT complex was also tested for its antibacterial activity against
two Gram-positive bacteria Staphylococcus aureus and Bacillus subtilis and two Gram-negative bacteria
Keywords:
Escherichia coli and Pseudomonas aeruginosa strains by using Tetracycline as standard, and antifungal
2,6-Diaminopyridine
3,5-Dinitrobenzoic acid
property against Aspergillus niger, Candida albicans, and Penicillium sp. by using Nystatin as standard.
Charge transfer The results were compared with standard drugs and significant conclusions were obtained. A polymeric
1
H NMR net work through H-bonding interactions between neighboring moieties was observed. This has been
13
C NMR attributed to the formation of 1:1 type CT complex.
DNA-binding Ó 2012 Elsevier B.V. All rights reserved.
0022-2860/$ - see front matter Ó 2012 Elsevier B.V. All rights reserved.
http://dx.doi.org/10.1016/j.molstruc.2012.09.016
I.M. Khan et al. / Journal of Molecular Structure 1035 (2013) 38–45 39
researched by fluorescence spectroscopy. Also, literature shows mounted on a glass capillary and data were collected using graph-
[16,21,39] that the CT complexes exhibit potential antimicrobial ite-monochromated Mo Ka radiation (k = 0.71073 Å) on Bruker
properties against Gram-positive as well as Gram-negative bacteria SMART APEX CCD diffractometer at 293 K. The data integration
and fungi. and reduction were processed with SAINT [44] software. An empir-
Researchers have worked on the interaction of 3,5-dinitroben- ical absorption correction was applied to the collected reflections
zoic acid with N-Methylaniline, 2,6-dimethylpyridine, norfloxacin with SADABS using XPREP [44]. All the structures were solved by
(nor) or ciprofloxacin (cip), 8-aminoquinoline [40,7,41]. Proton the direct method using SIR-97 [45] and were refined on F2 by
transfer complex of 2,6-diaminopyridine with series of nitro- the full-matrix least-squares technique using the SHELXL-97 [45]
substituted aromatic carboxylic acids and 2,4,6-trinitrobenzoic program package. A summary of crystallographic data collection
acid were also reported and studies their crystal structures and refinement parameters are given in Table 1.
[42,43]. The charge-transfer reactions of 2,6-diaminopyridine
(DAP) with 3,5-dinitrobenzoic acid (DNB) have not yet been re-
ported in literature to the best of our knowledge. In this paper, a
2.5. Pharmacology analyses
new CT complex, [(DAPH)+(DNB)] has been synthesized from
the reaction between DAP and DNB. This complex was further
Calf thymus DNA was dissolved in tris-HCl buffer (0.1 M, pH
characterized by FTIR, 1H and 13C NMR, ESI-mass spectroscopy
7.4). The purity of the DNA solution was checked from the absor-
and single crystal X-ray crystallography. The aim of the present
bance ratio A260/A280 (1.8). Fluorescence measurements were
study is to investigate interactions between acceptor and donor
made using spectrofluorophotometer Model RF-5301PC (Shima-
by X-ray crystallography and spectral analyses. The obtained re-
dzu, Japan) equipped with a 150 W Xenon lamp and a slit width
sults enabled us to ascertain the reaction stoichiometries, bonding
of 5 nm. A fixed concentration of the compound (30 lM) was taken
and structure of new [(DAPH)+(DNB)] as well as biological appli-
in a quartz cell and increasing amounts of ct-DNA solution was ti-
cations such as antimicrobial activities and DNA binding ability of
trated using increments of 5 lM. The fluorescence spectra were re-
complex.
corded in the range of 325–525 nm upon excitation at 320 nm at
310 K.
2. Experimental The antibacterial activity of newly synthesized [(DAPH)+
(DNB)] was tested in vitro against two Gram-positive bacteria
2.1. Materials Staphylococcus aureus (MSSA 22) and Bacillus subtilis (ATCC 6051)
and two Gram-negative bacteria Escherichia coli (K 12) and Pseudo-
Analytical grade DAP and DNB were employed for the synthesis monas aeruginosa (MTCC 2488) strains using disk diffusion method
of CT complexes. Chloroform (CHCl3) and DMSO were taken as [46,47]. Media with DMSO was setup as control. The disks measur-
HPLC grade. Calf thymus DNA (ct DNA) was purchased from Sigma ing 5 mm in diameter were prepared from whatmann no. 1 filter
(USA). paper sterilized by dry at heat at 140 °C for 1 h. The screening
was performed at 100 lg/ml concentration of test CT complex
2.2. Synthesis of CT complex and antibiotic disk, Tetracycline (30 lg/disk, Hi-Media) was used
as control. The present [(DAPH)+(DNB)] was also screened for its
The solid [(DAPH)+(DNB)] was prepared by mixing the satu- antifungal property against Aspergillus niger (Laboratory isolate),
rated solution of 2,6-diaminopyridine (0.108 g, 1 mmol) in CHCl3 Candida albicans (IQA-109) and Penicillium sp. (Laboratory isolate)
(25 ml) with saturated solution of 3,5-dinitrobenzoic acid in DMSO using standard agar disk diffusion method [48].
(0.636 g, 1 mmol) in CHCl3 (20 ml). An orange color solution was
formed upon the mixing and continuous stirring of these two reac-
tants produced orange precipitate. The precipitate was filtered off Table 1
and washed several times with small amounts (5 ml) of CHCl3 Crystallographic and data collection parameters for [(DAPH)+(DNB)] of DAP with
and dried under vacuum over CaCl2. DNB.
slightly to dissolve well. Then the solution was filtered through a Crystal system Triclinic
Space group P-1
Whatmann: 41 grade filter paper to remove the suspended impu- a = 6.859(3)
Unit cell dimensions (Å)
rities. The clear filtrate was collected in 50 ml conical flask and b = 12.505(5)
kept unperturbed in a dust free chamber for the growth of single c = 15.776(6)
crystal of the [(DAPH)+(DNB)]. Well defined, bright colored, trans- a = 95.327(7)
parent and needle shaped crystals were harvested at the end of the b = 93.426(7)
c = 102.753(7)
fifth day. 3 1309.5(9)
V ðÅ Þ
Z 4
2.4. Spectral and crystal structure analyses Dx (g cm3) 1.629
F(0 0 0) 664
The 1H NMR spectra and 13C NMR spectra of the reactants and h, k, l max 8, 15, 19
h range (°) 2.60–26.85
the crystal of [(DAPH)+(DNB)] were recorded in DMSO using the N ref 5295
Bruker DRX-300 NMR spectrometer. The FTIR spectra were re- Min and max transmission 0.968, 0.976
corded employing spectroscopic 2020 FTIR spectrometer using Refinement method Full matrix least squares on F2
the KBr pellet technique. The ESI mass spectrum of [(DAPH)+ Goodness of fit on F2 1.076
R1, wR2 [I > 2r (I)] 0.0678, 0.1712
(DNB)] was recorded using LC–MS Q-ToF Micro, Amino Acid
R1, wR2 (all data) 0.0945, 0.2258
Analyser (Shimadzu). A single crystal of the CT compound was
40 I.M. Khan et al. / Journal of Molecular Structure 1035 (2013) 38–45
The FTIR spectra of the donor, acceptor and resulting complex are 3.2. 1H NMR spectra
depicted in Fig. 1 showing the presence of characteristic absorption
bands due to the varied force constant in the donor and the acceptor 1
H NMR spectra of the DNB, DAP and the [(DAPH)+(DNB)] were
species on account of the prevalent proton transfer mechanism. A taken to investigate the environments of various protons as shown
13
3.3. C NMR spectra
13 +
Fig. 3. C NMR spectrum of [(DAPH) (DNB) ] of DAP with DNB. The resonance signals of aromatic ring carbons appear in the
119–166 ppm range as shown in Fig. 2S (a and b) and Fig. 3. The
sharp signal at d = 128 ppm is due to the C3 and C5 atoms of the
in Fig. 1S (a and b) and Fig. 2 respectively. The spectrum of DAP moiety in the [(DAPH)+(DNB)] but same was observed at
[(DAPH)+(DNB)] was recorded in DMSO (An internal reference), d = 111 ppm in free DAP. A signal observed at d = 141 ppm is as-
which exhibited a signal at d = 2.50 ppm (Fig. 2). Strong to medium signed to the C2 and C6 carbons while a medium intensity signal
intensity resonance signals due to the protons present in the at 119 ppm is attributed to C4 carbon of DAP moiety [54]. The
[(DAPH)+(DNB)] was observed at the expected positions. The sig- DNB moiety of [(DAPH)+(DNB)] shows resonance signals at
nal due to the COOH proton [52] was absent in the spectrum of the 147 ppm characteristic of the C3 and C5 carbons bearing the NO2
[(DAPH)+(DNB)] confirming the transfer of proton from DNB to groups [55] but this was observed at 148 ppm in free DNB as
DAP. A broad signal or multiplet of moderate intensity at shown in Fig. 2S (a). The high intensity resonance signal at
3.56 ppm observed in the spectrum of [(DAPH)+(DNB)] may be 166 ppm is assigned to the ipso carbon (C1), which in free DNB
due to residual water in d6-dmso or proton/deuterium exchange was observed at 163 ppm Fig. 2S (a) while signal at 143 ppm is
due to the C4 carbon of the DNB moiety in [(DAPH)+(DNB)] and at m/z = 202 indicates ultimately the formation of [CTC-COOH–
same was present at 122 ppm in free DNB. NO2+4H]+ species. Thus the ESI-mass data is in line with the
proposed molecular formula of CT complex which was further
3.4. ESI-Mass Spectrum corroborated from X-ray studies.
The stoichiometry of the novel [(DAPH)+(DNB)] was ascer- 3.5. X-ray crystallography of CT complex
tained from electron spray ionization (ESI)-mass spectral analysis.
The ES-mass spectrum of the compound is consistent with the for- The single crystal X-ray studies were performed on CT complex.
mation of the proposed molecular structure of the compound as The Ortev view and H-bonding scheme in extended structure are
shown in Fig. 4. The spectrum exhibited a molecular ion peak at shown in Fig. 5 and 6. It is clear from the crystal structure of the
m/z = 318 assignable to molecular ion fragment [CTC-3H]+, which complex that proton transfer phenomenon has taken place between
confirmed the formation of [(DAPH)+(DNB)] between DAP and the donor and the acceptor. A proton from the COOH group of DNB is
DNB. The peak at m/z = 110 is characteristic of the fragmented spe- transferred to the pyridyl nitrogen of DAP. This has been ascertained
cies [CTC-DNB+H]+. The remaining weak intensity peak at m/ further from the bond distance of N1-H101 or N5-H202 i.e., 0.982 Å,
z = 166 is due to the formation of [CTC-DAP-NO2]+. The peak at which is a normal covalent bond. The hydrogen bonding distances
m/z = 274 corresponds to the formation of [CTC-NO2–H]+. A peak present in CT complex are [N1H101 O5 = (2.593 Å)] and
Table 2
Selected atomic parameters and equivalent isotropic thermal parameters. 2.0
0
Atom X Y Z
Beq (Å
A)
O2 0.3695(4) 0.62813(18) 0.16438(15) 0.0246(5)
O8 0.0026(3) 0.56996(18) 0.70680(15) 0.0245(5)
1.5
O9 0.2165(3) 0.51437(17) 0.99071(15) 0.0237(5)
N1 0.7972(4) 0.8467(2) 0.38955(17) 0.0156(6)
F /F
o
N3 0.7995(4) 0.7551(3) 0.50900(18) 0.0210(6)
1.0
N4 0.7157(5) 0.9183(2) 0.7716(2) 0.0252(7)
N7 0.0297(4) 0.6701(2) 0.72580(16) 0.0187(6)
C1 0.7990(5) 0.8555(3) 0.3048(2) 0.0179(7)
C2 0.8177(5) 0.7652(3) 0.2500(2) 0.0190(7) 0.5
C3 0.8294(5) 0.6689(2) 0.2838(2) 0.0184(7)
C4 0.8228(4) 0.6595(2) 0.3706(2) 0.0182(7)
C5 0.8072(4) 0.7520(2) 0.4245(2) 0.0173(7)
H01 0.811(7) 0.708(4) 0.529(3) 0.038(13) 0.0
H02 0.808(5) 0.820(3) 0.545(2) 0.019(9) 0 10 20 30 40 50
H03 0.781(6) 0.958(4) 0.225(3) 0.042(12)
DNA (µM)
H04 0.768(6) 1.005(4) 0.316(3) 0.038(12)
H05 0.445(6) 0.650(3) 1.019(2) 0.031(10)
Fig. 8. Stern–Volmer plot for the binding of [(DAPH)+(DNB)] of DAP and DNB, with
H06 0.553(6) 0.766(4) 1.021(3) 0.030(12)
DNA.
H07 0.753(7) 0.973(4) 0.808(3) 0.043(13)
Fig. 7. Fluorescence emission spectra of [(DAPH)+(DNB)] of DAP and DNB in the absence (—) and presence of increasing amount (5 lM) of DNA from top second spectra to
bottom.
44 I.M. Khan et al. / Journal of Molecular Structure 1035 (2013) 38–45
Table 3
Antibacterial and antifungal activity of synthesized 100 lg/ml concentration of novel [(DAPH)+(DNB)] of DAP and DNB.
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