porphyrins: what happens when nitrogens are replaced by phosphorus? dr. aleksey kuznetsov, visiting...
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Porphyrins:
What Happens when Nitrogens Are
Replaced by Phosphorus?
Dr. Aleksey Kuznetsov, Visiting Professor,
Department of Chemistry, UFSCar
E-mail: [email protected]
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ContentsContents
What are porphyrins and why are we interested in them?
Geometric and electronic features of metalloporphyrins
Motivation: what exactly is interesting for us and why?
What happens when all pyrrole N’s are replaced with P’s: NiP example
Metalloporphyrins with all the pyrrole nitrogens replaced with phosphorus atoms,
MP(P)4 (M= Sc, Ti, Fe, Ni, Cu, Zn)
Comparative DFT study of the M-L binding energies (M = Sc, Ti, V, Cr, Mn, Fe,
Co, Ni, Cu, and Zn; L = porphine, P, and P4-substituted porphine, P(P)4)
Follow-up work
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Motivation: What Are Porphyrins and Why Are We Interested in Them?
Motivation: What Are Porphyrins and Why Are We Interested in Them?
Molecular structures of the various iron tetrapyrrole macrocycles. Adapted from M.-S. Liao, J. D. Watts and M.-J. Huang, J. Phys. Chem. A, 2005, 109, 7988-8000.
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Metalloporphyrins and Related Compounds
(a) chromophores (b) electron transfer agents
Biological Functions:
O2 transport and storage
light energy collection/transport
solar energy ⇒ chemical energy
conversion (photosynthetic reaction
centers)
electron transfer (cytochromes) etc.
Technological Applications:
catalysis
phototherapy
molecular electronics
artificial photosynthesis
sensitizers for dye-sensitized solar
cells (inexpensive, effective, and
environmentally friendly
chromophores) etc. 4
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Structures of protoheme (iron protoporphyrin IX), chlorophyll b, and cofactor F430. Adapted from J. A. Shelnutt, X.-Z. Song, J.-A. Ma, S.-J. Jia, W. Jentzen and C. J. Medforth, Chem. Soc. Rev., 1998, 27, 31-41.
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Geometric and Electronic Features of MetalloporphyrinsGeometric and Electronic Features of Metalloporphyrins
Four pyrrole rings; flat or nearly flat shape
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Nearly degenerate HOMOs and degenerate LUMOs
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Under D4h symmetry, tetrapyrrole species can undergo two nearly degenerate
electronic transitions: * HOMO (a1u) → LUMO (eg)
* HOMO-1 (a2u) → LUMO (eg).
The accidental degeneracy (high symmetry!) of these transitions strong mixing
two linear combinations: a higher energy in-phase combination (strongly allowed
Soret B-band) and a lower energy out-of-phase combination (weakly allowed Q-
band).
T. Miyahara, H. Nakatsuji, J. Hasegawa, A. Osuka, N. Aratani and A. Tsuda, J. Chem. Phys., 2002, 117, 11196-11207
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Aromaticity
Representations of -electron delocalization for a porphyrin core. Adapted from Y. Zhu and R. B. Silverman, J. Org. Chem., 2007, 72, 233-239.
Computed NICS values for free porphyrin base (left), its dianion (center), and the Mg complex (right). The dashed lines indicate the delocalized systems. Adapted from M. K. Cyrański, T. M. Krygowski, M. Wisiorowski, N. J. R. v. E. Hommes and P. v. R. Schleyer, Angew. Chem. Int. Ed., 1998, 37, 177-180.
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Conformational Flexibility of Porphyrins and Their Derivatives
Heme distortions. Left: out-of-plane distortions (red) are doming (dom) A2u, ruffling (ruf) B1u, saddling (sad) B2u, waving (wax, way) Egx,y and propellering (pro) A1u. Right: positive (red) and negative (blue) in-plane distortions involving meso-stretching (mst) B2g, N-pyrrole stretching (nst) B1g, pyrrole translation (trx, try) Eux,y, breathing (bre) A1g, and pyrrole rotation (rot) A2g. The reference D4h structure is shown in black. Adapted from D. E. Bikiel, F. Forti, L. Boechi, M. Nardini, F. J. Luque, M. A. Marti and D. A. Estrin, J. Phys. Chem. B, 2010, 114, 8536–8543.
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Sterically demanding/electron-withdrawing or donating
substituents in - or meso-positions; annulation
Central metaloxidation
Alteration of the conjugated system
Replacement of N(s) with
heteroatom(s)
Macrocycle “strapping” via covalent linkage
Degree of reduction Cation-
radical formation
Axial ligands
N-substitution
Factors capable of affecting the porphyrin macrocycle geometry (distortions from planarity) and electronic structure/delocalization
(Senge, M. O. Chem. Commun. 2006, 243)
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Tuning the size, shape, charge, and properties of porphyrins by
replacing pyrrole nitrogen(s) with other elementsreplacing pyrrole nitrogen(s) with other elements.
Numerous efforts devoted to the modification of the porphyrin core
with C, Si, or O-Se atoms.
Replacement of just 1 or 2 pyrrole nitrogens by P studied in several
porphyrins and their derivatives.
No studies of free porphyrins or their metal complexes with all
4 pyrrole nitrogens replaced with phosphorus atoms (P4-
porphyrins, or P(P)4) have been performed.
Motivation: What Is Interesting for Us? Motivation: What Is Interesting for Us?
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D. Delaere, M.T. Nguyen, A density functional study of the ground state electronic
structure of phosphorus-porphyrins, Chem. Phys. Lett. 376 (2003) 329-337.
Y. Matano, T. Nakabuchi, H. Imahori, Synthesis, structures, and aromaticity of
phosphole-containing porphyrins and their metal complexes, Pure Appl. Chem. 82
(2010) 583-593.
Y. Matano, H. Imahori, Phosphole-containing calixpyrroles, calixphyrins, and
porphyrins: synthesis and coordination chemistry, Acc. Chem. Res. 42 (2009) 1193-
1204.
T. Nakabuchi, Y. Matano, H. Imahori, Remarkable effects of P-perfluorophenyl
group on the synthesis of core-modified phosphaporphyrinoids and
phosphadithiasapphyrin, Org. Lett. 12 (2010) 1112-1115.
T. Nakabuchi, M. Nakashima, S. Fujishige, H. Nakano, Y. Matano, H. Imahori,
Synthesis and reactions of phosphaporphyrins: reconstruction of -skeleton triggered
by oxygenation of a core phosphorus atom, J. Org. Chem. 75 (2010) 375-389.
Y. Matano, M. Nakashima, T. Nakabuchi, H. Imahori, S. Fujishige, H. Nakano,
Monophosphaporphyrins: oxidative -extension at the peripherally fused carbocycle
of the phosphaporphyrin ring, Org. Lett. 10 (2008) 553-556.
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Y. Matano, T. Nakabuchi, S. Fujishige, H. Nakano, H. Imahori, Redox-coupled
complexation of 23-phospha-21-thiaporphyrin with group 10 metals: a convenient
access to stable core-modified isophorin-metal complexes, J. Am. Chem. Soc. 130
(2008) 16446-16447.
Y. Matano, T. Nakabuchi, T. Miyajima, H. Imahori, H. Nakano, Synthesis of
phosphorus-containing hybrid porphyrin, Org. Lett. 8 (2006) 5713-5716.
Y. Matano, T. Miyajima, N. Ochi, T. Nakabuchi, M. Shiro, Y. Nakao, S. Sakaki, H.
Imahori, Syntheses, structures, and coordination chemistry of phosphole-containing
hybrid calixphyrins: promising macrocyclic P,N2,X-mixed donor ligands for
designing reactive transition-metal complexes, J. Am. Chem. Soc. 130 (2008) 990-
1002.
Y. Matano, T. Miyajima, T. Nakabuchi, H. Imahori, N. Ochi, S. Sakaki, Phosphorus-
containing hybrid calixphyrins: promising mixed-donor ligands for visible and
efficient palladium catalysts, J. Am. Chem. Soc. 128 (2006) 11760-11761.
N. Ochi, Y. Nakao, H. Sato, Y. Matano, H. Imahori, S. Sakaki, New palladium(II)
complex of P,S-containing hybrid calixphyrin. Theoretical study of electronic
structure and reactivity for oxidative addition, J. Am. Chem. Soc. 131 (2009) 10955–
10963.
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Design of new compounds with potential applications in:
Catalysis
Alternative Energetics (Solar Energy Conversion)
Electronics
Optics
Medicine?
Motivation: Why Is It Interesting? Motivation: Why Is It Interesting?
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Questions:
(i) Structures of P4-porphyrins and their metal complexes?
(ii) Charge distribution in P4-porphyrins?
(iii) Stabilities of metallo-P4-porphyrins?
(iv) Substituents effects?
(v) Annulation effects?
(vi) Comparison with tetrapyrroles?
Motivation: What Is Interesting for Us-2?
Motivation: What Is Interesting for Us-2?
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What Happens when ALL Pyrrole N’s Replaced with P’s?What Happens when ALL Pyrrole N’s Replaced with P’s?
∡Cm-Ni-C
m', o:
146.5
∡Cm-Ni-C
m', o:
167.50.79
-0.71
-0.11
0.26
Barbee, J.; Kuznetsov, A. E. Comp. Theoret. Chem. 981, 73, 2012.
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Questions addressed in the research:
(i) What structures will P(P)4 compound and its metal complexes adopt?
(ii) How will be charges distributed in the metal-P(P)4 compounds compared to
tetrapyrrole species?
(iii) How will the complete replacement of nitrogens affect the ground spin state?
(iv) How different will be the MP(P)4 electronic properties compared to their MP
counterparts?
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Labeling scheme used in the study
Structural FeaturesStructural Features
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ScIIP(P)4 FeIIP(P)4
NiIIP(P)4ZnIIP(P)4
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Important Points:
All the neutral and cationic MP(P)4 species possess general prominent structural
feature: pronounced bowl-like shape, compared to generally planar or slightly
distorted from planar shapes of the tetrapyrrole counterparts.
The only bond distance which changes significantly from Sc to Zn is the M-P
bond distance.
The P5-P4-P3-M dihedral angle can be taken as the measure of the bowl-like
distortion in the MP(P)4 compounds.
P5-P4-P3-M: ca. 46-48o (Sc) → -4o (Zn).
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The changes in the M-P bond distances and in the P5-P4-P3-M dihedral angles are
generally in line with electronegativies of the transition metals under consideration
(Sc: 1.36; Ti: 1.54; Fe: 1.83; Ni: 1.91; Cu: 1.90; Zn: 1.65) and thus with their
polarization abilities, but not with their cationic radii.
The cationic MP(P)4 species have structures very similar to the neutral counterparts.
The general structural feature of the MP(P)4 species can be explained by the
pyramidalization of the P-atom bonds.
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Summary of the structural differences between MP(P)4 and MP:
(i) M-P bond distances: longer than M-N bond distances by ca. 0.16 Å.
(ii) P-Cbond distances: generally longer than N-Cbond distances by ca. 0.4 Å.
(iii) C-P-C bond angles: generally smaller than C-N-C bond angles by ca. 10-15o.
(iv) In MP Cm-M-Cm' angles differ from 180o only in ScIIP and ScIIIP and very
insignificantly in TiIIP, whereas in all MP(P)4 these angles differ from 180o very
strongly, by ca. 35 – 60o.
(v) P5-P4-P3-M dihedral angles: vary broadly, but N5-N4-N3-M dihedral angles are
different from 0o only for ScIIP, ScIIIP, and TiIIP.
(vi) C-C bond distances: generally not influenced by N-replacement with P-atoms.
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Species NBO charges, e
M P C C Cm H
ScIIP(P)4
(C1, 2A)
0.79 0.42,
0.50
-0.35,
-0.39
-0.23 -0.18
0.24
TiIIP(P)4
(C2, 3B)
0.36 0.54
-0.37
-0.22 -0.16
0.23
FeIIP(P)4
(C1, 3A)
0.20 0.55,
0.62
-0.37,
-0.38
-0.22 -0.17 0.24
NiIIP(P)4
(C2, 1A)
-0.19 0.68
-0.38
-0.22
-0.17
0.24
CuIIP(P)4
(C1, 2A)
0.24 0.54
-0.37 -0.22 -0.17 0.24
ZnIIP(P)4
(C2, 1A)
0.61 0.45
-0.35 -0.22
-0.17 0.24
Species NBO charges, e
M N C C Cm H
ScIIP
(C2, 2B)
1.81 -0.71,
-0.73
0.15,
0.16
-0.24 -0.26
0.24
TiIIP
(D2h, 3B2g)
1.48 -0.68
0.16
-0.25 -0.25
0.24
FeIIP
(D4h, 3B1g)
1.18 -0.60,
-0.62
0.16 -0.24 -0.23 0.24
NiIIP
(D2d, 1A1)
0.93 -0.56
0.16 -0.24
-0.23
0.24
CuIIP
(D4h, 2B1g)
1.11 -0.61 0.16 -0.24 -0.23 0.24
ZnIIP
(D4h, 1A1g)
1.28 -0.65
0.17 -0.25
-0.23 0.24
Electronic Features: ChargesElectronic Features: ChargesTable 1. Gas-phase calculated NBO charges for the neutral MP(P)4 species, M = Sc, Ti, Fe, Ni, Cu, Zn.
Table 2. Gas-phase calculated NBO charges for the neutral MP species, M = Sc, Ti, Fe, Ni, Cu, Zn.
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Summary of electronic features:
Positive charges on metals in MP(P)4: generally noticeably lower than charges on
metals in MP; explanation: nitrogen and phosphorus electronegativity differences
(3.04 vs. 2.19).
The unusually small Ni2+ radius, 0.69 Å,
its unusually high polarization ability
very significant charge transfer from the phosphorus centers to Ni2+
noticeable negative charge on the Ni center, -0.19e.
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The positive charge buildup on the P-atoms, opposite to the negative charge on
nitrogens in the MP tetrapyrrole counterparts of MP(P)4,
different reactivity patterns of the MP(P)4 compounds and their potential novel
applications.
The significant negative charges accumulated on the C-atoms in MP(P)4 compared
to the positive charge in MP: clearly explained by the lower P electronegativity
(2.19) compared to C (2.55); N electronegativity, 3.04, is significantly higher than
P.
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(HOMO/LUMO)a // Optical gapb
Sc Ti Fe Ni Cu Zn
MIIP(P)4
: 1.45
: 1.97//
2.48
: 1.35
: 1.95//
2.34
: 2.59
: 1.74//
2.59
2.57//
3.04
: 1.38
: 2.67//
2.77
1.97//
2.91
MIIP
: 1.30
: 2.66//
2.85
: 1.32
: 2.74//
3.08
: 3.12
: 2.37//
3.45
3.13//
3.52
: 3.08
: 3.11//
3.52
3.07//
3.55
Table 3. Gas-phase calculated HOMO/LUMO gaps (eV) and optical gaps (eV) for the neutral MP(P)4 and MP species, M = Sc, Ti, Fe, Ni, Cu, Zn.
Electronic Features: Orbital GapsElectronic Features: Orbital Gaps
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For ScIIP(P)4 and TiIIP(P)4 IPv/IPad values higher
than for ScIIP and TiIIP; starting from FeIIP IPv/IPad values higher for the MP species than for their MP(P)4 counterparts.
Electronic Features:
Ionization Potentials
Electronic Features:
Ionization Potentials
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EAv/EAad values for MP(P)4 noticeably higher
than for their MP counterparts, due to significant stabilization of the MP(P)4 LUMOs compared to
their MP counterparts.
Electronic Features: Electron
Affinities
Electronic Features: Electron
Affinities
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(i) The HOMOs of MP(P)4 have noticeable M contributions (exceptions: ZnIIP(P)4,
ScIIIP(P)4, TiIVP(P)4, and FeIIIP(P)4).
(ii) The LUMOs of MIIP(P)4 in general have compositions qualitatively similar to the
LUMOs of the MIIP counterparts, except ScIIP and FeIIP.
(iii) The HOMOs of ScIIP(P)4 and TiIIP(P)4 have compositions similar to the HOMOs
of their MIIP counterparts.
Electronic Features: Compositions of Frontier OrbitalsElectronic Features: Compositions of Frontier Orbitals
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(iv) The HOMOs of FeIIP(P)4 (-HOMO), NiIIP(P)4, CuIIP(P)4 (-HOMO), and
ZnIIP(P)4 have significant contributions from the metal and phosphorus atoms
compared to zero contributions of the metal and nitrogen atoms in the HOMOs of their
MIIP counterparts.
(v) There are noticeable composition differences for the HOMOs of the cationic
MP(P)4 species compared to their MP counterparts: significant contributions of the
phosphorus atoms compared with zero contributions of the nitrogen atoms in the MP
species.
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Conclusions and PerspectivesConclusions and Perspectives
(i) Complete substitution of the pyrrole nitrogens by phosphorus does not change the
calculated ground spin states and ordering of spin states.
(ii) All MP(P)4 possess a pronounced bowl-like shape. The cationic species have
structures very similar to their neutral counterparts.
(iii) The positive NBO charges on the metals in MP(P)4 are generally noticeably lower
than charges on the metals in MP. The significant positive charge is calculated to
accumulate on the P-atoms.
(iv) Both the calculated HOMO/LUMO gaps and optical gaps for the MP(P)4 species
are noticeably smaller than for their MP counterparts
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(i) How will counterions affect structures and properties of cationic MP(P)4 species?
(ii) How will annulation with different rings affect MP(P)4 species?
(iii) How strongly can MP(P)4 species interact with each other or with other (small)
molecules?
Conclusions and PerspectivesConclusions and Perspectives
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The results of this study were presented as online e-presentation at the Virtual Conference on Computational Chemistry VCCC-2014. Mauritius, 1-31 August, 2014, and selected as one of three best e-presentations.
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Follow-up study:
Comparative DFT study of the M-L binding energies (M = Sc, Ti, V, Cr, Mn, Fe, Co, Ni, Cu, and Zn; L = porphine, P, and P4-substituted
porphine, P(P)4). Aleksey E. Kuznetsov
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38Figure 1. Gas-phase calculated binding energies, Ebind (eV), for the MP(P)4 (red signs) and MP (green signs) compounds in their ground states. ZPE energies not included.
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I. Computational study on how the modification of the ligand, from P(P)42- to Pc(P)4
2-,
Pc = phthalocyanine, would affect structural and electronic properties (HOMO/LUMO
gaps, optical gaps, ionization potentials, electron affinities) and M-Ligand binding
energies of MP(P)4 derivatives for the metals of the first transition row (Sc, Ti, V, Cr,
Mn, Fe, Co, Ni, Cu, Zn).
More Follow-Up WorkMore Follow-Up Work
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II. Computational study of effects of counterions (Cl-, N3-, CH3COO-) and modification
of the ligand (from P(P)42- to P(P)4(C6H4)4
2-, which is actually annulation of P(P)42- with
four benzene rings) on structural and electronic properties (HOMO/LUMO gaps,
optical gaps, ionization potentials, electron affinities) and M-Ligand binding energies
of metallotetraphosphaporphyrin derivatives.
More Follow-Up WorkMore Follow-Up Work
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III. Preliminary computational studies of stacks, or dimers, of neutral MP(P)4 species
are currently in progress. The calculated binding energies of these dimers are usually
about several kcal/mol. It is of high interest to understand why the coordination type
shown is preferred over other types of bonding.
Calculated gas-phase structures of the neutral dimers (stacks) of MP(P)4, M = (a) Sc (C1, 3A), (b) Ni (C1, 1A), and (c) Zn (C1, 1A).
More Follow-Up WorkMore Follow-Up Work
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IV. Computational studies of complexes C60-MP(P)4, M = Zn, Ni, similar to structure
shown below.
More Follow-Up WorkMore Follow-Up Work
Junzi Liu, Yong Zhang, and Wenjian Liu, J. Chem. Theory Comput., 2014, 10 (6), pp 2436–2448
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V. Computational studies of O2 and N2 activation by MP(P)4 species.
More Follow-Up WorkMore Follow-Up Work
Victoria E. J. Berryman, Matthew G. Baker, and Russell J. Boyd, J. Phys. Chem. A 2014, 118, 4565−4574
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Thank You for Your Attention!!!Thank You for Your Attention!!!
Questions?
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Computational DetailsComputational Details
The studies performed with the Gaussian 09 package.
All the calculations done using the split-valence 6-31G* basis set and the hybrid
B3LYP functional. This approach proved to give geometries in good agreement
with experiments and shown to produce the ordering of spin states of metallo-
porphyrin complexes reasonably well. The energy differences (in kcal/mol) obtained
with the zero-point corrections given in parentheses.
The MP(P)4 species studied both in the gas phase and with implicit solvent effects,
using the self-consistent reaction field IEF-PCM method (the UFF default model,
with the electrostatic scaling factor = 1.0), with H2O, C6H5CH3, and CH3CN as
solvents (dielectric constants ε = 78.3553, 2.2706, and 35.688, respectively).
For further demonstration of the reliability of the B3LYP/6-31G* approach, global
minimum search calculations on MP(P)4 repeated using two GGA functionals, PBE
and PW91, in the gas phase, with the 6-31G* basis set.
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Computational DetailsComputational Details
Time-dependent DFT calculations of the optical gaps performed using the TD-
B3LYP approach: with the gas-phase B3LYP/6-31G* optimized geometries, the 6-
31G* basis set, and number of the states chosen to be 30.
The vertical ionization potentials (IPs) and electron affinities (EAs), IPsv/EAsv,
obtained in single-point calculations from the energies of systems with N and N±1
electrons; the latter calculated using geometries of the N-electron systems. The
adiabatic IPs and EAs (IPad/EAad) obtained from the energies of the systems with N
and N±1 electrons, the latter calculated using optimized geometries of the N±1
electron species.
For the charge analysis, the Natural Bond Orbital (NBO) analysis scheme used.
For HOMO and LUMO compositions: total densities of states (DOS) and fragment
densities of states (projected DOS, PDOS) calculated. For the fragment densities of
states calculations, the MP(P)4 and MP species ‘split’ into the following fragments:
M, P/N, and (C+H) remainder of the ligands.
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Species Bond length, Å, and angles, deg.
M-P P-C C-C C-C C-Cm Cm-M-Cm' C-P-C P-M-P P5-P4-P3-M
MIIP(P)4
ScIIP(P)4
(C1, 2A)
2.43,
2.53
1.77,
1.80
1.43,
1.45
1.37,
1.39
1.40,
1.42
119.36
92.39,
95.39
107.76,
137.97
46.42
TiIIP(P)4
(C2, 3B)
2.32
1.78
1.44
1.38
1.41
123.24 92.31
130.73
32.97
FeIIP(P)4
(C2, 3B)
2.15,
2.20
1.78,
1.79
1.43,
1.45
1.37,
1.39
1.40,
1.42
141.79 93.01,
93.34
166.03,
169.73
9.74
NiIIP(P)4
(C2, 1A)
2.12
1.78
1.44
1.38
1.41
146.47
92.94
174.13 4.15
CuIIP(P)4
(C2, 2A)
2.24 1.79 1.44 1.38 1.41 144.94 91.55 178.18 -1.29
ZnIIP(P)4
(C2, 1A)
2.37 1.79 1.45 1.37 1.41 144.55 91.39 173.83 -4.36
Table 1. Gas-phase calculated (B3LYP/6-31G* level of theory) principal structural parameters of the neutral MIIP(P)4, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP(P)4 species, M = ScIII,
TiIV, FeIII.
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ZnIIP(P)4
(C2, 1A)
2.37 1.79 1.45 1.37 1.41 144.55 91.39 173.83 -4.36
MIII/IVP(P)4
ScIIIP(P)4
(C1, 1A)
2.43,
2.55,
2.56
1.77,
1.79
1.44,
1.45
1.38 1.40,
1.41
119.26
92.32,
95.00
105.18,
136.25
47.69
TiIVP(P)4
(C1, 3A)
2.35,
2.36
1.79
1.43
1.39
1.40,
1.41
122.03,
122.04
93.12,
93.34
124.53,
126.02
36.72
FeIIIP(P)4
(C2, 4A)
2.19
1.79 1.43 1.39 1.41 139.50,
139.51
92.80,
92.81
165.20,
165.24
10.38
Table 1. Gas-phase calculated (B3LYP/6-31G* level of theory) principal structural parameters of the neutral MIIP(P)4, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP(P)4 species, M = ScIII,
TiIV, FeIII (continuation).
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Ground state (symmetry, spin)/
Energy gap between the ground state and the next spin state,E0 (E)
Sc Ti Fe Ni Cu Zn
MIIP(P)4
C2, 2B/
22.1 (21.5)
C2, 3B/
8.2 (8.5)
C2, 3B/
16.6 (15.2)
C2, 1A/
24.7 (18.1)
C2, 2A/
32.7 (30.7)
C2, 1A/
17.6 (16.9)
MIII/IVP(P)4
C1, 1A/
20.8 (18.8)
C1, 3A/
4.3 (3.3)
C2, 4A/
12.0 (12.4)
Table 1. Ground state (symmetry, spin) and energy gap between the ground state and the next
spin state for the neutral MIIP(P)4, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP(P)4 species,
M = ScIII, TiIV, FeIII (gas-phase calculated, B3LYP/6-31G* level of theory).
Ground States and Low-Lying StatesGround States and Low-Lying States
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Ground state (symmetry, spin)/
Energy gap with the next lower-lying spin state,E0 (E)
Sc Ti Fe Ni Cu Zn
MIIP
C2, 2B/
35.6 (33.1)
D2h, 3B2g/
2.8 (2.4)
D4h, 3B1g/
8.1 (6.8)
D2d, 1A1/
8.0 (7.0)
D4h, 2B1g/
42.7 (39.2)
D4h, 1A1g/
42.1 (38.4)
MIII/IVP
C1, 1A/
37.5 (35.2)
C1, 3A/
3.2 (4.1)
D4h, 4B3g/
13.5 (12.1)
Table 2. Ground state (symmetry, spin) and energy gap between the ground state and the next
spin state for the neutral MIIP, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP species, M = ScIII,
TiIV, FeIII (gas-phase calculated, B3LYP/6-31G* level of theory).
Important: the complete substitution of the pyrrole nitrogens by phosphorus atoms does not change the calculated ground spin state of the compound and also generally does not change the ordering of spin states. This situation is retained for both neutral and cationic species.
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Ground state (symmetry, spin)/
Energy gap between the ground state and the next spin state, E0 (E)
Sc Ti Fe Ni Cu Zn
MIIP(P)4
C2, 2B/
22.1 (21.5)//
18.4 (17.8)//
18.4 (18.0)
C2, 3B/
8.2 (8.5)//
5.6 (5.4)//
5.4 (5.3)
C2, 3B/
16.6 (15.2)//
16.7 (16.9)//
16.6 (16.0)
C2, 1A/
24.7 (18.1)//
23.9 (22.7)//
25.2 (24.7)
C2, 2A/
32.7 (30.7)//
33.3 (30.4)//
33.2 (30.4)
C2, 1A/
17.6 (16.9)//
14.0 (13.4)//
14.0 (13.5)
Table 3. Ground state (symmetry, spin) and energy gap between the ground state and the next
spin state for the neutral MIIP(P)4, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP(P)4 species,
M = ScIII, TiIV, FeIII (gas-phase, [B3LYP/6-31G*]//[PW91/6-31G*]//[PBE/6-31G*] levels of
theory).
Ground States and Low-Lying States:
Effects of Other Functionals
Ground States and Low-Lying States:
Effects of Other Functionals
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C2, 2B/
22.1 (21.5)//
18.4 (17.8)//
18.4 (18.0)
C2, 3B/
8.2 (8.5)//
5.6 (5.4)//
5.4 (5.3)
C2, 3B/
16.6 (15.2)//
16.7 (16.9)//
16.6 (16.0)
C2, 1A/
24.7 (18.1)//
23.9 (22.7)//
25.2 (24.7)
C2, 2A/
32.7 (30.7)//
33.3 (30.4)//
33.2 (30.4)
C2, 1A/
17.6 (16.9)//
14.0 (13.4)//
14.0 (13.5)
MIII/IVP(P)4
C1, 1A/
20.8 (18.8)//
15.1 (14.5)//
15.1 (14.5)
C1, 3A/
4.3 (3.3)//
3.1 (2.6)//
3.3 (2.7)
C2, 4A/
12.0 (12.4)//
5.3 (5.1)//
5.6 (5.5)
- - -
Table 3. Ground state (symmetry, spin) and energy gap between the ground state and the next
spin state for the neutral MIIP(P)4, M = Sc, Ti, Fe, Ni, Cu, Zn, and cationic MIII/IVP(P)4 species,
M = ScIII, TiIV, FeIII (gas-phase, [B3LYP/6-31G*]//[PW91/6-31G*]//[PBE/6-31G*] levels of
theory) (continuation).
Important:
(i) Other density functionals did not influence the ground spin state of both neutral and cationic MP(P)4 compounds and did not affect significantly the energy gaps
between the ground state and the next low-lying spin state.
(ii) All the three implicit solvents used did not change noticeably the relative energies of MP(P)4 spin states or isomers. Thus, it was justified to consider the gas-phase
calculated neutral and cationic species in the discussion.
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Contributions of the specific atoms in %a
M//P(N)//C+H
Orbital Sc Ti Fe Ni Cu Zn
MIIP(P)4
HOMO : 14//0//78
: 0//53//42
: 26//0//72
: 0//51//45
: 14//33//52
: 32//0//58
21//31//48 : 14//36//50
: 0//0//98
0//48//47
LUMO : 12//15//73
: 12//0//79
: 25//0//69
: 11//0//80
: 0//36//70
: 16//0//78
0//23//72 : 0//20//78
: 0//17//81
0//16//82
MIII/IVP(P)4
HOMO 0//53//43
: 0//50//47
: 0//0//98
: 0//47//47
: 0//36//57
- - -
LUMO 16//0//78
: 21//0//74
: 0//48//49
: 0//22//76
: 30//0//67
- - -
Table 9. Contributions of the specific atoms in % to the HOMO and LUMO of the neutral MP(P)4 and MP species, M = Sc, Ti, Fe, Ni, Cu, Zn, at the B3LYP/6-31G* level of theory.
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LUMO 16//0//78
: 21//0//74
: 0//48//49
: 0//22//76
: 30//0//67
- - -
MIIP
HOMO : 13//0//81
: 0//21//76
: 36//0//62
: 0//23//76
: 0//0//100
: 74//0//24
0//0//100 : 0//0//100
: 0//0//100
0//0//100
LUMO : 11//0//83
: 11//0//82
: 17//0//78
: 10//0//83
: 0//12//85
: 0//0//83
0//12//86 : 0//12//88
: 0//12//87
0//12//88
MIII/IVP
HOMO 0//0//100
: 0//0//97
: 0//0//95
: 0//0//100
: 0//0//100
- - -
LUMO 15//0//79
: 34//0//64
: 0//14//85
: 54//35//10
: 105//0//0
- - -
Table 9. Contributions of the specific atoms in % to the HOMO and LUMO of the neutral MP(P)4 and MP species, M = Sc, Ti, Fe, Ni, Cu, Zn, at the B3LYP/6-31G* level of theory.
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Figure 2. Relative stabilities of spin states of the MP(P)4 (a) and MP (b) species (in eV). The ground state is set to 0 eV. Spin multiplicity 2S+1 is indicated in the chart.
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Figure 2. Relative stabilities of spin states of the MP(P)4 (a) and MP (b) species (in eV). The ground state is set to 0 eV. Spin multiplicity 2S+1 is indicated in the chart.
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Examples of sandwich complexes of transition metals (TM) and organic
molecules (metallocenes):
Os Cr Mn
2. Novel Sandwich Compounds2. Novel Sandwich Compounds
Motivation: What Are Sandwich Compounds and Why Are They Interesting?
Motivation: What Are Sandwich Compounds and Why Are They Interesting?
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(i) Design of 1D-complexes (wires) with more than 1 metal atom between
two (aromatic) ligands.
(ii) Design of complexes with metal clusters containing both organic and
inorganic ligands.
(iii)What new properties sandwich complexes with metal clusters could have?
(iv) Possibilities to design 2D/3D-complexes containing metal clusters, and
their potential applications.
Motivation: What Specifically Is Interesting for Us?
Motivation: What Specifically Is Interesting for Us?
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Multiple metal centers in a single molecular unit
cooperative effects
molecular electronics
catalysis
magnetic and optical materials
polymers
medicine
nanodevices, etc.
Potentially useful properties:
•facile redox behavior
•easy derivatization
•electron conductivity
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Theoretical design of sandwich complexes containing TM clusters and
various organic and inorganic ligands:
(i) What would be the largest n at which a sandwiched TMn cluster is still
stable?
(ii) Complexes with both the same and different (mixed) TMn clusters?
(iii) Multiple-decker systems containing several layers of TMn clusters and
ligands? What would be the maximum number of metal cluster layers/
ligand layers (‘decks’) at which a system is still stable?
Research TasksResearch Tasks
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Summary of the Preliminary WorkSummary of the Preliminary Work
Theoretical design of a series of sandwich complexes [M3L2(CO)3]q (M = Cu, Ag, Au;
L = C7H7, P5, P6, As5, As6; q = 3+, 1-, …).
Inspired by the works of Peng Jin, Fengyu Li, and Zhongfang Chen (Theoretical
Design of Novel Trinuclear Sandwich Complexes with Central M3 Triangles (M =
Ni, Pd, Pt), J. Phys. Chem. A 2011, 115, 2402–2408) and Jesús Muñiz, Enrique
Sansores, and Roger Castillo (Theoretical study on the electronic structure and
reactivity of the series of compounds [Au3X3M2], with X = H, F, Cl, Br, I and M =
Li, Na, K, Rb, Cs: the quest for novel catalytic nano-materials, Theor. Chem. Acc.
2013, 132, 1373.
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Jin, P.; Li, F.; Chen, Z. J. Phys. Chem. A 2011, 115, 2402.
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Collaborative projects at the Department of Chemistry at UFSCar:
I. Investigation of Ru-diphosphine/pyrimidine complexes possessing potential
anti-Mycobacterium tuberculosis activity and cytotoxicity; collaboration with the
research group of Professor Alzir Batista.
One publication within this joint project was submitted to Journal of the Brazilian
Chemical Society:
Anti-Mycobacterium tuberculosis activity and cytotoxicity of ruthenium diphosphine/
pyrimidine-2-thiolate complexes, Benedicto A. V. Lima, Rodrigo S. Correa, Angelica
E. Graminha, Aleksey Kusnetsov, Javier Ellena, Fernando R. Pavan, Clarice Q.F.
Leite, Alzir A. Batista.
Collaborative WorkCollaborative Work
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Another publication within this joint project is currently in preparation.3 isomeric complexes with different orientations of Cl and CO are studied:tc-[RuCl(CO)(dppb)(bipy)]PF6 (1) cc-[RuCl(CO)(dppb)(bipy)]PF6 (2) ct-[RuCl(CO)(dppb)(bipy)]PF6 (3)
Subject of computational study: relative energies of complexes, charges, HOMO compositions. B3LYP with different basis sets is used.
Ru
Cl
CO
P
PN
N
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II. Investigation of electrochemically reduced graphene oxide; collaboration with
the research group of Professor Ernesto Pereira.
Currently, the computational studies of the graphene sheet model are performed with
the goal to show that the corrugated graphene is more stable than the flat graphene.
C42 model is used, with the PBEPBE/3-21+G* theoretical approach.
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III. Investigation of Au nanoparticles passivated with (X-C4H9)2 ligands, X = S,
Se, Te; collaboration with the research group of Professor Emerson Camargo.
The goal of the project: to clarify the reason of nonlinear dependence of ligand
oxidation percentage on the X nature.
The DFT approach with different functionals and different basis sets, and with
different nanoparticle models is being used.
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BE 32.8 kcal/mol
Au20(Te2C4H18)2, 1A; BE 43.0 kcal/mol
Au20(S2C4H18)2, 1A; BE 27.9 kcal/mol
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The outside collaborative project covers the topic of assignment of the ET mechanism
in cytochrome bc1:
On the use of properly calibrated 1D tunneling models in biological electron
transfer: resolution of the Hopfield-Dutton-Gray paradox and assignment of the
ET mechanism in cytochrome bc1. Aleksey E. Kuznetsov, Judith C. Hempel, Shahar
Keinan, William A. Cramer, and David N. Beratan. Manuscript in preparation;
collaboration with the research group of Professor David N. Beratan (Duke
University, USA) and with Dr. Shahar Keinan (University of North Carolina, Chapel
Hill, USA).
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Also, in 2014 I participated in the joint project grant application under Chamada de
Propostas do Programa para Pesquisas em eScience provided to FAPESP
(rejected), and submitted my own proposal for the financial support offered by the
CNPq, Call ‘CHAMADA UNIVERSAL MCTI/CNPQ Nº 14/2014’, “Porphyrin
Derivatives with All Pyrrole Nitrogens Replaced with Phosphorus Atoms: New
Chemistry and New Potential Applications“ (rejected).
Last semester I was teaching the graduate course “Introduction to Computational
Chemistry”, and this semester I will be teaching the graduate course “Quantum
Chemistry: Theoretical Basis and Practical Applications”.