A Density Functional Theory (DFT) study on di-n-Butyltin(IV) Derivative of Glycyltryptophane

 

Sandeep Pokharia

Organometallics and Molecular Modelling Group, Chemistry Section, M.M.V., Banaras Hindu University, Varanasi-221005, India.

*Corresponding Author E-mail: sandeepp@bhu.ac.in

 

ABSTRACT:

The density functional theory (DFT) based quantum-mechanical calculations have been performed on di-n-butyltin(IV) derivative of glycyl-tryptophane (H2L) using the Gaussian09 software package. The molecular geometry of n-Bu2SnL was optimized with B3LYPfunctionalwith the standard 3-21G basis set for all the atoms, except the tin(IV) atom which was described by LANL2DZ basis set along with the effective core potential, without any symmetry constraint. The harmonic vibrational frequencies were computed at the same level of theory to find the true potential energy surface (PES) minima. The various geometrical and thermo chemical parameters for n-Bu2SnL have been obtained in gas phase and in the solvent field. The atomic charges at all the atoms were calculated using Mulliken Population Analysis, Hirshfeld Population Analysis and Natural Population Analysis. The charge distribution within the studied complex is explained on the basis of molecular electrostatic potential maps and conceptual-DFT based reactivity (global as-well-as local) descriptors, using the finite difference approximation method. The calculated parameters suggest a distorted tetrahedral geometry around the central Sn atom. The nature of O-Sn, N-Sn, N®Sn and C-Sn bonds is discussed in terms of the conceptual-DFT based reactivity descriptors. The structural analysis of the studied complex has been carried out in terms of the selected bond lengths and bond angles. The vibrational analysis of characteristic infrared vibrational frequencies of the studied complex has also been carried out.

 

KEYWORDS: Conceptual-DFT, di-n-butyltin(IV), glycyltryptophane, organotin(IV), reactivity descriptors.

 


INTRODUCTION:

The organotin(IV) chemistry has drawn considerable attention to the researchers in recent decades owing to their structural diversity and wide range of synthetic, industrial and biological applications.1 Organotin(IV) derivatives of ligands containing hetero donor sites holds importance as potential biologically active metallopharmaceuticals owing to their unique structural features and also due to their potential biological applications as anti-tumour,2-5 and antiviral activity.2

 

In the last decade, several of the di- and triorganotin(IV) derivatives of dipeptides have been modelled for metal-protein interactions and also been shown to exhibit wide range of biological activities.6-11 These studies have motivation to understand the electronic properties of such derivatives, so as to formulate a theoretical basis for the experimental observations. In the contemporary research, the density functional theory (DFT) based quantum-mechanical methods holds special significance in order to understand the detailed electronic structure of the molecules and to calculate the properties, so as to correlate the structural features with the probable biological activity.

 

The DFT has been successfully utilized to account for the experimental observations for several organotin(IV) derivatives with hetero donor atoms.12-14As a part of our systematic efforts to study the electronic structure of organotin(IV)-peptide system,15 the present study reports the DFT based quantum-mechanical calculations on the previously synthesized di-n-butyltin(IV) derivative of glycyltryptophane (Figure 1).16

 

Figure 1: Structure (along with atom number) of (a) gly-trp (H2L), and (b) di-n-butyltin(IV) derivative of gly-trp.

 

COMPUTATIONAL DETAILS:

All the quantum chemical calculations have been performed using the Gaussian 09 program package.17The molecular geometries of glycyl-tryptophane (H2L) and n-Bu2SnL were fully optimized in the gas phase at the DFT level using the B3LYP functional which is a combination of Becke’s three parameter (B3) gradient corrected hybrid exchange functional,18 with the dynamical correlation functional of Lee, Yang and Parr (LYP).19All the atoms except Sn were described by 3-21G basis set, and the Sn atom was described by LANL2DZ basis set in which Sn inner shells are described by effective core potential ECP46MWB (1s22s22p63s23p63d104s24p64d10) along with the basis set (3s3p)/[2s2p].20The geometry optimization was carried out through an algorithm of iterative steps to locate true global minima on the potential energy surface (PES) with default parameters for convergence is met. The absence of an imaginary frequency in a harmonic frequency calculation carried out at the same level of theory indicates that the calculated geometry is a true global minimum on the PES. The optimized geometrical parameters and the atomic charges at all the atoms in the studied systems were calculated using Mulliken Population Analysis (MPA), Hirshfeld Population Analysis (HPA), and Natural Population Analysis (NPA) at the same level of theory. The energies of frontier molecular orbitals and conceptual-DFT based global and local reactivity descriptors based on MPA, HPA and NPA have been calculated using finite difference approximation.21,22The visualization of all results have been performed using Gauss View 5.0.23

 

RESULTS AND DISCUSSION:

Geometry Optimization:

The ground state geometry optimization and harmonic frequency calculations (in the gas phase) of n-Bu2Sn(IV) derivative of gly-trp (H2L) was achieved using DFT at B3LYP/3-21G/LANL2DZ(Sn) basis set. The ground state optimized geometry in the gas phase for n-Bu2SnL is presented in Figure 2 (cf. Figure 1 for atom number notation). The selected bond lengths and bond angles in the studied system are presented in Table 1.The standard 3-21G basis set accurately predicts the geometric parameters for organic part of the compounds, and the LANL2DZ pseudo-potential sufficiently accounts for the relativistic effects on the tin(IV) atom. The calculated C-Sn, O-Sn, N-Sn and N®Sn bond lengths are comparable to the reported bond lengths for various diorganotin(IV) derivatives which possess coordination of organotin(IV) moiety with the hetero donor atoms.10,12-14,24The distortion of the molecule is evident from the axial angle Namino-Sn-O17 of 154.47°, as reported for other diorganotin(IV)-dipeptide system.10,24 The calculated geometric parameters suggest that the complex adopts distorted trigonal bipyramidal arrangement around the tin(IV) atom with two n-butyl groups and peptide nitrogen occupying equatorial positions and the amino nitrogen and carboxylic oxygen atoms occupying the axial positions, as reported for other diorganotin(IV) derivatives of dipeptides.7,8,10,16,24,25

 

Figure 2: Ground state optimized geometry (in gas phase) of n- Bu2SnL calculated at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

 

Table 1: Selected bond lengths (Ĺ) and bond angles (0) inn-Bu2Sn(IV) derivative of gly-trp (H2L)in the gas phase.

Parametera

n-Bu2SnL

B3LYP/3-21G/LANL2DZ(Sn)

Bond Length

Sn-C34

2.152

Sn-C37

2.154

Sn-O17

2.010

Sn-Npeptidic

2.064

Sn-Namino

2.339

Namino-C3

1.506

Npeptidic-C5

1.356

O17-C13

1.356

COpeptide

1.229

Bond angle

C34-Sn-C37

120.60

C34-Sn-Npeptidic

117.85

C37-Sn-Npeptidic

119.52

Namino-Sn-Npeptidic

  74.73

Namino-Sn-O17

154.47

Npeptidic-Sn-O17

  80.03

 

Thermo Chemical Studies:

The various energetic and thermo chemical parameters for n-Bu2SnL in the gas phase have been obtained at 1 atm and 298.15 K at B3LYP/3-21G/LANL2DZ(Sn) level of theory, and the results are presented in Table 2. The calculated molecular mass for n-Bu2SnL is 491.13834 a.m.u.. Since, for n-Bu2SnL T >>qr (Table 2), it will show classical behavior. Further, for n-Bu2SnL the calculated zero point vibrational energy (ZPVE) in gas phase, which is the difference in the energy of the bottom of the internuclear potential energy well (VBOT) and the energy of the vibrational ground state (v = 0) is 315.16 Kcal/mol. Furthermore, the total energy of n-Bu2SnL in gas phase has been calculated after zero-point correction, and thermal correction to energy, enthalpy and Gibbs free energy, and the results (Table 2) indicate that all of the electronic energy of n-Bu2SnL is exothermic. For instance, the calculated total energy of n-Bu2SnL after thermal correction to Gibbs free energy is -1205.282048 a.u. The electronic heat capacity and the internal thermal energy due to electronic motion are both zero, because electronic partition function does not contain temperature dependent terms. The value of Etot, Stot and CVtot for n-Bu2SnL in gas phase is 334.246 Kcal/mol, 202.253 Cal/Mol-Kelvin and 111.929 Cal/Mol-Kelvin, respectively (Table 2). As evident from the results, the maximum contribution to Etot, Stot and CVtot of n-Bu2SnL in gas phase is due to vibrational motion of the molecule. Further, the individual contribution due to each component to the partition function has also been calculated for n-Bu2SnL in gas phase. The results indicate that the maximum contribution is due to vibrational partition function computed with the zero of energy being the bottom of the well (qvib, BOT).

 

Table 2. Calculated thermo chemical parameters for the ground state optimized geometries (in gas phase) of n-Bu2SnL.

Parameter

Level of Theory

B3LYP/3-21G/ LANL2DZ(Sn)

Molecular mass (a.m.u.)

491.13834

Rotational temperaturea (qr) (Kelvin)

 

 

0.01096

0.00365

0.00331

Rotational constantb (GHz)

 

 

0.22836

0.07600

0.06899

ZPVEc (kcal/mol)

315.32

Zero-point correctiond (Hartree/Particle)

0.502497

Thermal correction to Energye (Hartree/Particle)

0.532671

Thermal correction to Enthalpyf (Hartree/Particle)

0.533615

Thermal correction to Gibbs free energyg (Hartree/Particle)

0.437376

Sum of electronic and zero-point energiesh(a.u.)

-1205.216927

Sum of electronic and thermal energiesi(a.u.)

-1205.186753

Sum of electronic and thermal enthalpiesj(a.u.)

-1205.185809

Sum of electronic and thermal free energiesk (a.u.)

-1205.282048

log10Ql

qE

qT [log10(qT)]

qR [log10(qR)]

qV, BOT [log10(qV, BOT)]

qV, v = 0 [log10(qV, v = 0)]

 

0

8.631261

7.399348

-201.178396

29.953792

Etotm (kcal/mol)

(Etot = Eelec + Etrans + Erot + Evib)

334.256

(0 + 0.889 + 0.889 + 332.479)

Stotn (Cal/Mol-Kelvin)

(Stot = Selec + Strans + Srot + Svib)

202.553

(0+ 44.462 + 36.838 + 121.253)

CVtoto (Cal/Mol-Kelvin)

(CVtot = CVelec + CVtrans + CVrot + CVvib)

111.929

(0 + 2.981 + 2.981 + 105.968)

 

a, where, h is Planck’s constant, I is moment of inertia, and kB is Boltzmann constant; b, where h and I have their usual meaning; cZero point vibrational energy; dZero-point energy (EZPE), is the vibrational energy which a molecule possess in the vibrational ground state (v = 0); eCorrection to internal thermal energy (Etot = Eelec + Etrans +Erot + Evib); fHcorr = Etot + kBT, and it includes zero-point energy; gGcorr = Hcorr –TStot, where, Stot = Selec + Stran + Srot + Svib, and includes ZPE; hSum of electronic and zero point energy (= E0 + EZPE); iSum of electronic and thermal energies (= E0 + Eelec + Etransl + Erot + Evib); jSum of electronic and thermal enthalpies (= E0 + Hcorr); kSum of electronic and thermal free energies (= E0 + Gcorr); lQ is total molecular partition function, where q(V,T) is the partition function for the corresponding component i.e., electronic (qE = w0, where w0 is the electronic spin multiplicity of the molecule ), translational (qT = , where m is the mass of  the molecule, and kB, h, P and T have their usual meaning), rotational (qR = , where I is the moment of inertia along three axis, sR is the symmetry number), vibrational computed with the zero of energy being the bottom of the well (qV, BOT = ), and vibrational computed with the zero of energy being the first vibrational level (qV, v = 0); mInternal thermal energy with contribution from electronic, translational, rotational and vibrational motion, respectively, as Eelec = 0 (because partition function doesn’t contain temperature dependent term); Etrans = ; Erot = ; ; nEntropy with contribution from electronic, translational, rotational and vibrational motion, respectively, as Selec = RlnqE = Rlnw0, where w0 has its usual meaning; Strans = R(lnqT + ); Srot = R(lnqR + ); and SV = ; oConstant volume molar heat capacity, with contribution from electronic, translational, rotational and vibrational motion, respectively, as CVelec = 0, CVtrans = , CVrot = , and CVvib = .

 

Atomic charges:

In molecular systems, the attribution of net atomic charges is allowed by population analysis, though the atomic charge is not a physical reality. In order to understand the probable interaction of n-Bu2SnL with macromolecular receptors, an electron density distribution analysis has been performed on the basis of atomic charges determined by three different population schemes viz., MPA, HPA and NPA in the gas phase within the n-Bu2SnL at B3LYP/3-21G/LANL2DZ(Sn) level of theory. The calculated atomic charges based on MPA, HPA and NPA at the selected atoms in n-Bu2SnL are presented in Table 3. The population of the atomic orbitals suggest that in n-Bu2SnL the natural electron configuration of central Sn atom is [core]5s0.865p0.996p0.02, which differs significantly from n-Bu2Sn(IV)2+ cation configuration [core]5s2. The absolute value of the natural charge of Sn in n-Bu2SnL is about 2.133 (Table 3) on the basis of NPA, whereas on the basis of MPA and HPA the charge is about 1.454 and 0.701 (Table 3), respectively. The NPA charge suggests that charge transfer is very minor and interaction of n-Bu2Sn(IV) moiety and dipeptide unit is mostly ionic. Similar, results are reported for diorganotin(IV) systems with ligands having hetero donor atoms.12-14 Further, the natural electron configuration of coordinating atoms in dipeptide unit viz., N1, N9 and O17 is [core]2s1.432p4.48, [core]2s1.352p4.463p0.01and [core]2s1.702p5.06, respectively.  The absolute value of natural charge of N1, N9 and O17 on the basis of NPA is -0.909, -0.817 and -0.761, respectively (Table 3), whereas the charge on these atoms on the basis of MPA is about -0.073, -0.793 and -0.632, respectively, and on the basis of HPA is about 0.143, -0.220 and -0.329, respectively. Moreover, the natural electron configuration of two carbon atoms (covalently bonded to the central Sn atom) viz., C34 and C37 is [core]2s1.182p3.813p0.01. The absolute value of natural charge of C70 and C73 on the basis of NPA is -1.001 and -1.000, respectively (Table 3), whereas the charge on these atoms on the basis of MPA is about -0.301 and -0.322, respectively, and on the basis of HPA is about -0.107 and -0.119, respectively. The existence of such oppositely charged centres around the central Sn atom further confirms the ionic interaction in the Sn-O and Sn-N bonds.

 

The results (Table 3) indicate that the most negative atomic charges are attributed to oxygen, nitrogen and organotin(IV) carbon atoms in n-Bu2SnL derivative. Further, in the trigonal bipyramidal arrangement of ligand around n-Bu2Sn(IV) moiety, the charge density increases on all the coordinating atoms viz. carboxylic oxygen atom (upon deprotonation), amino nitrogen atom and peptide nitrogen atomupon coordination to the tin(IV) atom. Furthermore, the calculated charge on the selected atoms in the neutral complex is observed probably due to the high positive charge of tin(IV) atom and also due to the shift of electron density towards coordinating atoms, as reported for other organotin(IV)-hetero donor system.12-14

 


 

 

Table 3. Atomic charge (a.u.) at the selected atoms for neutral (N), anionic (N+1) and cationic (N-1) species of n-Bu2SnL, based on MPA, HPA and NPA charge schemes calculated at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

Atom (k)a

MPAb,c

HPAd

NPA

qN (k)

qN+1 (k)

qN-1 (k)

qN (k)

qN+1 (k)

qN-1 (k)

qN (k)

qN+1 (k)

qN-1 (k)

Sn

1.4536

1.0542

1.2676

0.7007

0.5224

0.7016

2.1332

1.6600

1.9824

C34

-0.3008

-0.3489

-0.2503

-0.1071

-0.1960

-0.0784

-1.0011

-0.9773

-0.9401

C37

-0.3218

-0.3535

-0.2496

-0.1194

-0.1760

-0.0775

-1.0003

-0.9794

-0.9578

N1

-0.0733

-0.1148

-0.0401

0.1425

-0.0242

0.0850

-0.9089

-0.8335

-0.8518

C3

0.1597

0.0689

0.2017

0.1122

0.0376

0.1405

-0.3543

-0.3351

-0.3338

C5

0.6585

0.5256

0.5637

0.1517

0.1262

0.1807

0.6071

0.5304

0.5915

O8

-0.5023

-0.5217

-0.4502

-0.2890

-0.3072

-0.2295

-0.5598

-0.5770

-0.4997

N9

-0.7929

-0.6152

-0.6353

-0.2204

-0.2529

-0.2246

-0.8168

-0.7768

-0.7769

C10

0.1366

0.0382

0.0707

0.0685

0.0261

0.0608

-0.1667

-0.1879

-0.1780

C13

0.6775

0.5912

0.6367

0.1853

0.1748

0.2056

0.7220

0.6696

0.6914

O17

-0.6316

-0.5910

-0.5352

-0.3285

-0.3391

-0.2841

-0.7608

-0.7306

-0.6759

O18

-0.4902

-0.5069

-0.4420

-0.2771

-0.2798

-0.1990

-0.5391

-0.5602

-0.4673

C16

-0.0128

0.0257

0.0496

-0.0559

-0.0464

0.0483

-0.1283

-0.0938

0.0553

N22

-0.5032

-0.3782

-0.2616

0.0639

-0.0203

0.0987

-0.5617

-0.5938

-0.5232

aAtom number as represented in Figure 1; bMulliken charges with hydrogens summed into heavy atoms; cN is the number of electrons for neutral (N), anionic (N+1) and cationic (N-1) species; dHirshfeld charges with hydrogens summed into heavy atoms.

 


Conceptual-DFT based global and local reactivity descriptors:

The molecular properties and conceptual-DFT based global reactivity descriptors for the ground state optimized geometries in the gas phase of n-Bu2SnL, calculated using finite difference approximation are presented in Table 4. The results indicate that the dipole moment that accounts for the existence of charged separated regions within the system is high for n-Bu2SnL (9.344 Debye). Since, the band gap (DE) measures the stability and reactivity of the system,21,26 therefore the observed DE value (14.828 eV) indicates that the n-Bu2SnL complex is stable. The frontier molecular orbital analysis for n-Bu2SnL has been performed  through the Koopman’s approximation within the molecular orbital theory.21,26  The EHOMO and ELUMO energies for n-Bu2SnL in gas phase are presented in Table 4. The EHOMO and ELUMO plots along with the band gap (DE) for n-Bu2SnL in the gas phase are presented in Figure 3. As evident from the HOMO and LUMO plots (Figure 3), in n-Bu2SnL, the HOMO is concentrated over the dipeptide unit, whereas the LUMO is concentrated over the Sn centre.  The global reactivity descriptors calculated based on frontier molecular orbital analysis are also presented in Table 4. The global hardness (h) is a global property that can be regarded as a resistance to charge transfer, whereas global softness (S) measures the ease of charge transfer and is associated with high polarizability.26 The value of h for n-Bu2SnL is 14.8277 eV, whereas the value of S is 0.0674/eV. Since finite difference approximation to global hardness equates it to band gap, therefore these results indicate that n-Bu2SnL with large band gap is hard and not easily polarizable. Moreover for n-Bu2SnL, the electrophilicity index (w), which measures the electrophonic power of a system,27and which can be described as the maximum ability of a molecule to accept electrons in the neighborhood of an electron reservoir,28 has value 0.3126 eV. Since, w is positive, therefore the charge transfer is an energetically favorable process, and assuming the system as electron donor, the complex has a greater electrophonic power during partial electron transfer to an electron acceptor.

 

The conceptual-DFT based local reactivity descriptors, which are considered to predict the regioselectivity of the atoms in n-Bu2SnL, have been calculated at all the atoms with three different population analysis schemes viz., MPA, HPA and NPA. The results based on NPA scheme at the selected atoms of n-Bu2SnL are presented in Table 5. The Fukui function measures the reactivity towards the nucleophilic attack on the system, its large value at a particular site indicates that the site is capable of accepting electron density, similarly, since the Fukui function measures the reactivity towards an electrophilic attack on the system, its large value at a particular site indicates that the site is an electron donating site.21 Further, Parr and Yang had proposed that larger value of Fukui function indicates more reactivity,29 and hence, for a particular atomic centre in the molecule, greater the value of the condensed Fukui function, more reactive it will be.26 As evident from the results (Table 5), in n-Bu2SnL, the trends based on the values of ,  and  with NPA scheme suggest that Sn is the most reactive site towards nucleophilic attack.  The results obtained are in accordance to the frontier molecular orbital analysis, which indicates that in n-Bu2SnL the HOMO is concentrated around the coordinating atoms in the dipeptide moiety and LUMO is concentrated around the central Sn atom. These results outline the general behavior of the central Sn atom in the organotin(IV) complexes in accordance to the previously reported experimental observations, that R2Sn(IV)2+ is an active species in the biological medium.1,30The two variants of the hardness potential viz., the electrophilic hardness potential () and nucleophilic hardness potential (), measures the reactivity towards an approaching nucleophilic and electrophilic reagent, respectively. These descriptors have also been calculated at all the atoms of n-Bu2SnL, and the values for these two descriptors at the selected atoms are presented in Table 5.

 

A nucleophilic attack on an atom increases the electron density on it, resulting in a higher absolute value of VelN+1(k) thereby making  a positive quantity. Normally, the higher the value of  at an atom, higher should be the reactivity (i.e., electrophilicity) of that atom towards an approaching nucleophile.31 Similarly, in case of an electrophilic attack on an atom the electron density gets reduced over it, resulting in a positive value of  as the absolute value of Vel(k) of the atom decreases. Also, higher the positive value of  for an atom, higher should be the reactivity (i.e., nucleophilicity) of that atom towards an approaching electrophile. As evident from the results (Table 5), in n-Bu2SnL, the trends based on the values of  suggest that O18 is the most reactive site towards an approaching nucleophilic reagent. Similarly, the trends based on the values of  suggest that, in n-Bu2SnL N1 is the most reactive site towards an approaching electrophilic reagent.

 

The relative electrophilicity helps to locate the preferable site (or atom) in a molecule for a nucleophilic attack on it and it is the electrophilicity of any site as compared to its own nucleophilicity, whereas the relative nucleophilicity helps to locate the preferable site (or atom) in a molecule for an electrophilic attack on it and it is the nucleophilicity of any site as compared to its own electrophilicity.32As evident from the results (Table 5) in n-Bu2SnL, O8 has maximum relative nucleophilicity (3.5073), whereas O18 has maximum relative electrophilicity (0.2943).The dual reactivity descriptor (,33 a selectivity index is able to characterize both the nucleophilic and electrophilic behaviours. As evident from the results (Table 5), in n-Bu2SnL among the selected atoms Sn atom has the most positive  value (16.98 eV). The positive value of  indicate that the central Sn atom is favoured for the nucleophilic attack, whereas negative value of  indicate that the coordinating atoms are favoured for an electrophilic attack.

 

Table 4. Calculated molecular properties and conceptual-DFT based global reactivity descriptors for the ground state optimized geometries (in gas phase) of n-Bu2SnL at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

Parameter / Property

System(n-Bu2SnL)

EN (a.u.)a

-1205.719424

EN+1 (a.u.)

-1205.558859

EN-1 (a.u.)

-1205.335086

Dipole moment (Debye)b

9.3435

I.P. (eV)c

10.4585

E.A. (eV)d

-4.3692

DE (eV)e

14.828

EHOMO (eV)f

-10.4585

ELUMO (eV)g

4.3692

Electronic chemical potential (m) (eV)h

-3.0446

Electronegativity (c) (eV)i

3.0446

Global hardness (h) (eV)j

14.8277

Global softness (S) (/eV)k

0.0674

Electrophilicity index (w) (eV)l

0.3126

 

aEN, EN+1 and EN-1 are the total energies of the system containing respectively, N, N+1 and N-1 electrons; bDipole moment for the system containing N number of electrons; cI.P. is the ionization potential given by EN1 - EN; dE.A. is the electron affinity given by EN-EN+1; eΔE is the band gap given by I.P.-E.A; fEnergy of the highest occupied molecular orbital as -EHOMO = I.P.; gEnergy of the lowest unoccupied molecular orbital as -ELUMO = E.A.; hElectronic chemical potential of the system given by (); iElectronegativity of the system given by –µ; jGlobal hardness of the system given by ELUMO - EHOMO; kGlobal softness of the system given by 1/ɳ; lElectrophilicity index of the system given by µ2/2ɳ.

 

Figure 3: Highest Occupied Molecular Orbital (HOMO) and Lowest Unoccupied Molecular Orbital (LUMO) plots along with band gap (ΔE) in the gas phase for n-Bu2SnL calculated at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

 

Table 5. Conceptual-DFT based local reactivity descriptors at the selected atoms in n-Bu2SnL, based on NPA scheme calculated at  B3LYP/3-21G/LANL2DZ(Sn) level of theory.a

Atom (k)b

Fukui functionc,d

Local softnesse

Local electrophilicityf

Hardness Potentialg

Relative nucleo- philicityh

Relative electro- philicityi

Dual descriptorj

f+(k)

f-(k)

s+(k)

s-(k)

w+(k)

w-(k)

D+h(k)

D-h(k)

Sn

12.8771

-4.1030

0.8679

-0.2765

4.0254

-1.2826

-6.1474

14.3169

-0.3186

-3.1385

16.9800

C34

-0.6476

1.6613

-0.0437

0.1120

-0.2025

0.5193

4.2411

2.7756

-2.5651

-0.3898

-2.3089

C37

-0.5679

1.1540

-0.0383

0.0778

-0.1775

0.3608

1.2579

5.2702

-2.0321

-0.4921

-1.7220

N1

-2.0518

1.5532

-0.1383

0.1047

-0.6414

0.4855

-50.6332

57.7100

-0.7570

-1.3210

-3.6050

C3

-0.5206

0.5578

-0.0351

0.0376

-0.1627

0.1744

-32.2478

38.9233

-1.0716

-0.9332

-1.0784

C5

2.0871

-0.4259

0.1407

-0.0287

0.6524

-0.1331

-29.3199

36.9273

-0.2040

-4.9010

2.5130

O8

0.4667

1.6368

0.0315

0.1103

0.1459

0.5117

-13.1179

20.6879

3.5073

0.2851

-1.1701

N9

-1.0887

1.0855

-0.0734

0.0732

-0.3403

0.3393

-25.0160

33.0379

-0.9970

-1.0030

-2.1742

C10

0.5758

-0.3078

0.0388

-0.0207

0.1800

-0.0962

5.2238

2.4234

-0.5345

-1.8709

0.8836

C13

1.4264

-0.8340

0.0961

-0.0562

0.4459

-0.2607

15.7435

-8.2114

-0.5847

-1.7103

2.2605

O17

-0.8210

2.3092

-0.0553

0.1556

-0.2566

0.7218

2.8451

4.5330

-2.8127

-0.3555

-3.1302

O18

0.5750

1.9538

0.0388

0.1317

0.1797

0.6108

36.3719

-28.4596

3.3980

0.2943

-1.3788

C16

-0.9374

4.9947

-0.0632

0.3366

-0.2930

1.5613

3.0124

5.2721

-5.3280

-0.1877

-5.9321

N22

0.8749

1.0455

0.0590

0.0705

0.2735

0.3268

-6.0999

13.5622

1.1950

0.8368

-0.1706

aAll the values are in electron volt, except for relative electrophilicity and relative nucleophilicity; bAtom number as represented in Figure 1; cFukui function [f±(k)]: f+(k) = [PN+1(k) – PN(k)] and f-(k) = [PN(k) – PN–1(k)]; dP(k) is the electronic population on atom k in the neutral species (N), the cationic species (N-1) and the anionic species (N+1), where N is the number of electrons; eLocal softness [s±(k)]: s+(k) = [PN+1(k) – PN(k)]S and s-(k) = [PN(k) – PN–1(k)]S, where S is the global softness (= 0.0674 for n-Bu2SnL); fLocal electrophilicity [w±(k)]: w+(k) = [PN+1(k) – PN(k)]w and w-(k) = [PN(k) – PN–1(k)]w, where w is the electrophilicity index (= 0.3126 for n-Bu2SnL); gHardness potential [D±h(k)]: D+h(k) = hN+1(k) – hN(k) and D-h(k) = hN(k) – hN-1(k), where h(k) =-Vel(k) (Vel being the electronic part of the molecular electrostatic potential); hRelative nucleophilicity defined as ; iRelative electrophilicity defined as ; jDual reactivity descriptor defined as: .

 

 


Vibrational Analysis:

The n-Bu2Sn(IV) derivative of gly-trp consists of 59 atoms, hence it has 171 normal modes of vibration. The harmonic vibrational frequencies for the n-Bu2Sn(IV) derivative of gly-trp was calculated in the gas phase at B3LYP/3-21G/LANL2DZ(Sn) level of theory. The characteristic absorption bands in the studied n-Bu2Sn(IV) derivative are summarized in Table 6. The theoretical infrared spectrum is presented in Figure 4, and theoretical Raman spectrum is presented in Figure 5. The calculated values for n(NH)amino, n(CO)amide, nasym(OCO),nsym(OCO) and amide II band [n(CN) + d(NH)] are in good agreement to the reported values for other diorganotin(IV) dipeptides derivatives.10,15,16,24,25The results suggest that, the amino group is coordinated to the central tin(IV) atom, the carboxylate group acts as a monodentate ligand, the amide I (n(CO)amide) group is not coordinated with the tin(IV) atom and the peptide nitrogen is the third coordinating site, as reported previously for diorganotin(IV)-depeptide system.10,15,16,24,25The appearance of medium intensity absorption band at 421 cm-1 in the studied derivative, may be assigned to the Sn-O stretching vibration, as reported previously for several organotin (IV)-oxygen derivatives.10,15,16,24,25The coordination to the central tin atom is further confirmed by the appearance of medium intensity bands at 520 and 496 cm-1, assigned to n(N-Sn) and n(N®Sn), respectively. The nasym(Sn-C) and nsym(Sn-C) bands in the studied derivative were observed at 625 and 601 cm-1, respectively, which suggests the existence of a bent C-Sn-C moiety.10,15,16,24,25

 

CONCLUSIONS:

The present study has satisfactorily achieved the electronic structure calculation of di-n-butyltin(IV)-glycyltryptophane system at B3LYP/3-21G/LANL2DZ(Sn) level of theory. The atomic charge calculations and the frontier molecular orbital analysis suggest that upon coordination of gly-trp molecule to di-n-butyltin(IV) moiety the electron density is concentrated around the coordinating amino nitrogen, peptidic nitrogen and carboxylic oxygen atoms. The utility of frontier molecular orbital analysis lies in its use in the calculation of conceptual-DFT based global as well-as local reactivity descriptors, which can rationalize the modelling of diorganotin(IV)-dipeptide derivatives for probable metal-protein interactions. Most importantly, the present work emphasizes the growing importance of DFT based quantum-chemical methods for the electronic structure calculations of organotin(IV)-peptide system, so as to design and synthesize new metallopharmaceuticals.

 

ACKNOWLEDGEMENTS:

The author is thankful to Banaras Hindu University, Varanasi for providing necessary infrastructural facilities. Thanks are also due to Dr. H. Mishra, Physics Section, M.M.V., B.H.U., Varanasi for providing access to the Gaussian software package.


Table 6: Characteristic infrared vibrational frequencies (in cm-1) for n-Bu2SnL calculated at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

Type of band

Frequency (cm-1)

ν(NH)imidazole

3600

ν (NH)amino

νasy: 3472

νsym: 3392

Amide I [ν (CO)amide]

1690

ν (CN)

1342

ν (NH)

1707 (scissoring)

ν asym(OCO)

1746

ν sym(OCO)

1192

ν asym(Sn-C)

625

ν sym(Sn-C)

601

Sn -O

Sn -N

421

520; 496

 

Figure 4: Theoretical infrared spectrum of n-Bu2SnL calculated at B3LYP/3-21G/LANL2DZ(Sn) level of theory.

 

Figure 5: Theoretical Raman spectrum of n-Bu2SnL calculated at HF/3-21G/LANL2DZ(Sn) level of theory.

 

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Received on 17.01.2016         Modified on 25.01.2016

Accepted on 14.02.2016         © AJRC All right reserved

Asian J. Research Chem. 9(2): Feb., 2016; Page 53-61

DOI: 10.5958/0974-4150.2016.00010.9