Biomedical subjects

Patrick W Fowler

Publications and source records attributed to Patrick W Fowler.

At least 19 recordsLinked to original sources

PubMed2007

On the lack of ring-current aromaticity of (heteroatom) [N]radialenes and their dianions.

Current-density maps, calculated at the ab initio RHF//6-31G**/CTOCD-DZ level, show no significant pi ring current in planar equilateral geometries of neutral and dianionic [N]radialenes, oxocarbons and thiocarbons C(N)Y(N) (q-) (Y=CH(2), O, S; N=4, 5, 6; q=0 (1 a-12 a), 2 (1 b-12 b)). Only the N=3 deltate dianions C(3)Y(3) (2-) (Y=CH(2), O, S (1 b, 5 b and 9 b)) have discernible pi ring current, and then with at most 20-25 % of the strength of the standard benzene current. On the magnetic criterion, lack of current is definitive evidence against aromaticity. Pictorial molecular-orbital analysis within the ipsocentric approach shows this to be an inevitable consequence of the nodal structure of the pi and pi* orbitals of [N]radialene-like systems. On grounds of angular-momentum symmetry, spatial distribution, or both, the HOMO-LUMO excitation does not contribute a significant central diamagnetic ring current.

Anions↗

PubMed2007

Vertex spirals in fullerenes and their implications for nomenclature of fullerene derivatives.

The IUPAC nomenclature of fullerene derivatives is based on the vertex spiral, but not all fullerenes possess one. There are 1495 isomers with <or=20 vertices (66 isolated-pentagon isomers with <or=150 vertices) that are vertex-aspiral, but only four for which all vertex spiral starts succeed. Vertex-aspiral trivalent polyhedra are common (40 190 with <or=24 vertices); infinite series include truncates of all trivalents larger than the tetrahedron. An alternative and readily automated breadth-first-search numbering scheme is proposed to deal with all trivalent polyhedra including fullerenes and incidentally to give robust, efficient determination of the automorphism/point group. For fullerenes, the new scheme has two clear advantages over the vertex spiral nomenclature: it is exception-free, removing the need for complex prescriptions to deal with exceptional cases, and it is mathematically simpler in that the numbering can be found in linear rather than quadratic time (as all canonical numberings for a fullerene begin on a pentagon).

Journal Article↗

PubMed2006

Super-delocalized valence isomer of coronene.

Coronene (1) has been proposed to be "superaromatic", but energetic, geometric, and magnetic criteria of global and local aromaticity fail to support this proposal, and indeed, the calculated current-density map shows opposition of currents: diatropic on the 18-carbon rim and paratropic on the 6-carbon hub. However, [7,5,7,5,7,5]-isocoronene (2) ([7,5,7,5,7,5:6]-circulene, or isocoronene, for short), which is a valence isomer in which alternate pentagons and heptagons replace the hexagons surrounding the central ring, is predicted to have a single, unopposed, intense diatropic perimeter current arising from its four pi HOMO electrons, such as in the ipsocentric description of classically aromatic [4n + 2]-annulenes, hence, qualifying 2 as superaromatic on the magnetic criterion. This conclusion is in excellent agreement with anisotropy of magnetic susceptibility (359 cgs-ppm for isocoronene vs 247 cgs-ppm for coronene) and exaltation of magnetic susceptibility (isocoronene exceeds coronene by 51.4 cgs-ppm). Central and perimeter bond lengths suggest an increased aromaticity of isocoronene. In contrast, the energetic criterion shows that isocoronene is destabilized with respect to coronene by ca. 105 kcal/mol of which only ca. 30 kcal/mol can be attributed to differential strain.

Anisotropy↗

PubMed2006

Ring currents in tangentially p-p bonded sigma-aromatic systems.

We report a theoretical study of ring systems that delocalize electrons in a cyclic array of p orbitals arranged tangentially in sigma-bonding fashion. Sigma-bonded arrays are compared to conventional pi-bonded analogues with respect to orbital symmetry and aromatic/antiaromatic behavior. In a one-to-one correspondence between pi and tangential molecular orbitals of a cycle, local rotation turns each pi to a tangential basis function, changing bonding interactions to antibonding and inverting the order of filling of molecular orbitals. The ipsocentric ring-current mapping approach is used to evaluate aromaticity on the magnetic criterion. As for conventional pi-ring currents, the sigma-ring current in tangential p-p bonded systems is dominated by the HOMO-LUMO transition, corresponding to circulation of four electrons in diatropic (4n + 2)-electron cycles but two in paratropic (4n)-electron cycles. The systems examined here utilize either C 2p or Si 3p orbitals for delocalization. Although interchangeable with C with respect to the fundamental orbital symmetry and ring-current rules, Si bonds at greater internuclear distances, a feature that allows easier design of potentially stable sigma-aromatic structures. Calculations show the wheel-like Si10C50H70 structure 6 as a stable, neutral aromatic molecule with a diatropic ring current following the sigma-bond path formed by Si 3p orbitals.

Journal Article↗

PubMed2006

The origin of the ring current in the all-metal aromatic, Al(4)(2-).

Apparent contradictions between ipsocentric, Nucleus-Independent Chemical Shift (NICS) and Gauge-Including Magnetically Induced Current (GIMIC) evaluations of ring current aromaticity in Al(4)(2-) are resolved in favour of the description of this all-metal system as sigma aromatic on the magnetic criterion.

Aluminum↗

PubMed2006

Designing ring-current patterns: [10,5]-coronene, a circulene with inverted rim and hub currents.

In an axial magnetic field, coronene, corannulene and kekulene support disjoint paratropic-hub and diatropic-rim ring currents. Bond-order and orbital arguments suggest [10,5]-coronene, C30H10, comprising 10 fused pentagons around a central decagon, as a system that should support an inverted diatropic-hub/paratropic-rim pattern of induced currents. The proposal is verified by ipsocentric ab initio mapping of currents, reproduced with the economical pseudo-pi method, thus validating a powerful toolkit for design of (induced) molecular magnets.

Journal Article↗

PubMed2006

The shell structure of pi ring currents in the expanded porphyrin amethyrin.

Direct ab initio mapping of induced current density in the pi system of the expanded porphyrin amethyrin shows a picture at variance with the conventional 4npi ascription of antiaromaticity. The ipsocentric orbital model interprets the pattern of currents as a superposition of shell contributions: an intense paratropic ring current concentrated on the inner 20-site cycle, counteracted by a weaker diatropic circulation on a 24-site conjugation pathway and a combination of local 5-site diatropic circulations on the six pyrrolic rings.

Electrons↗

PubMed2006

Persistence of paratropic ring currents in nonplanar, tub-shaped geometries of 1,3,5,7-cyclooctatetraene.

[reaction: see text] Surprisingly, the anti-aromatic paratropic ring current of the planar D(4)(h) transition state of 1,3,5,7-cyclooctatetraene (COT) survives almost all the way to the equilibrium tub-shaped D(2)(d) COT structure (plane-to-plane distance, d = 0.76 A); the current vanishes at ca. 80% of the geometric change and ca. 90% of the energy change from planar to tub geometry.

Journal Article↗

PubMed2006

Aromaticity rules for cycles with arbitrary numbers of half-twists.

A simple proof is given that the Hückel aromaticity rules generalise to cycles with an arbitrary number of half-twists, T; addition/removal of half-twists two at a time preserves all eigenvalues and degeneracies, so that closed-shell aromatic systems occur at pi-electron counts 4N+ 2, and antiaromatic at 4N for even T, and vice versa for odd T.

Algorithms↗

PubMed2005

Rare-gas insertion compounds of perfluorobenzene: aromaticity of some unstable species.

Calculations on the novel argon insertion compounds C6F6Ar(n), n = 1-6, where the argon atoms are inserted into the C-F bonds in perfluorobenzene, suggest that all possible species, with one to six inserted argon atoms, occupy minima on their respective potential energy surfaces. Ring-current plots using the ipsocentric model indicate that there is no disruption of the aromatic pi system upon argon insertion, and consequently all insertion compounds are aromatic according to the magnetic criterion. The barrier height for decomposition of the single-insertion compound, C6F6Ar, into C6F6+Ar is 19.5 kcal/mol at HF6-311G** and 29.5 kcal/mol at B3LYP6-311G**, suggesting that, although clearly thermodynamically unstable, argon-perfluorobenzene insertion compounds may be stable kinetically. Preliminary calculations indicate that other rare gas-perfluorobenzene insertion compounds may also be metastable. Both C6F6Ne and C6F6He are predicted to occupy minima on their respective potential energy surfaces.

Journal Article↗

PubMed2005

Ring currents in the porphyrins: pi shielding, delocalisation pathways and the central cation.

It is shown that the ipsocentric orbital-based model explains how the charge of the central cation drives the delocalisation pathway in metalloporphyrins. A positive charge +Ze at the centre of the porphin ring gives rise to a two-way radial transfer of charge within the pi structure of the porphin macrocycle. This manifests itself in a change of pathway of the global pi current, as Z increases from Z = 0, from an inner- through a bifurcated- to an outer-pathway. Changes of pathway can be interpreted in terms of a specific pi shielding effect whereby electrons in high-lying pi orbitals are screened from the central charge by the electrons in lower-lying orbitals of the same symmetry. These changes in pi structure are essentially independent of accompanying changes in the sigma structure.

Cations↗

PubMed2005

Favorable entropy of aromatic clusters in thermophilic proteins.

Aromatic clusters, found with increased frequency in a set of thermophilic proteins, confer an entropic advantage over mesophilic analogues through introduction of large-amplitude oscillations; this is a source of improved free energy at high temperatures.

Amino Acid Sequence↗

PubMed2005

The electronic structure of inorganic benzenes: valence bond and ring-current descriptions.

Valence bond (VB) theory and ring-current maps have been used to study the electronic structure of inorganic benzene analogues X(6)H(6) (X = C (1), Si (2)), X(6) (X = N (3), P (4)), X(3)Y(3)H(6) (X,Y = B,N (5), B,P (6), Al,N (7), Al,P (8)), and B(3)Y(3)H(3) (Y = O (9), S (10)). It is shown that the homonuclear compounds possess benzene-like character, with resonance between two Kekulé-like structures and induced diatropic ring currents. Heteronuclear compounds typically show localization of the lone pairs on the electronegative atoms; Kekulé-like structures do not contribute. Of the heteronuclear compounds, only B(3)P(3)H(6) (6) has some benzene-like features with a significant contribution of two Kekulé-like structures to its VB wave function, an appreciable resonance energy, and a discernible diatropic ring current in planar geometry. However, relaxation of 6 to the optimal nonplanar chair conformation is accompanied by the onset of localization of the ring current.

Computer Simulation↗

PubMed2005

A unified orbital model of delocalised and localised currents in monocycles, from annulenes to azabora-heterocycles.

Why are some (4n+2)pi systems aromatic, and some not? The ipsocentric approach to the calculation of the current density induced in a molecule by an external magnetic field predicts a four-electron diatropic (aromatic) ring current for (4n+2)pi carbocycles and a two-electron paratropic (antiaromatic) current for (4n)pi carbocycles. With the inclusion of an electronegativity parameter, an ipsocentric frontier-orbital model also predicts the transition from delocalised currents in carbocycles to nitrogen-localised currents in alternating azabora-heterocycles, which rationalises the differences in (magnetic) aromaticity between these isoelectronic pi-conjugated systems. Ab initio valence-bond calculations confirm the localisation predicted by the naive model, and coupled-Hartree-Fock calculations give current-density maps that exhibit the predicted delocalised-to-localised/carbocycle-heterocycle transition.

Journal Article↗

PubMed2004

Is there a "most chiral tetrahedron"?

A degree of chirality is a function that purports to measure the amount of chirality of an object: it is equal for enantiomers, vanishes only for achiral or degenerate objects and is similarity invariant, dimensionless and normalisable to the interval [0,1]. For a tetrahedron of non-zero three-dimensional volume, achirality is synonymous with the presence of a mirror plane containing one edge and bisecting its opposite, and hence it is easy to design degree-of-chirality functions based on edge length that incorporate all constraints. It is shown that such functions can have largest maxima at widely different points in the tetrahedral shape space, and by incorporation of appropriate factors, the maxima can be pushed to any point in the space. Thus the phrase "most chiral tetrahedron" has no general meaning: any chiral tetrahedron is the most chiral for some legitimate choice of degree of chirality.

Journal Article↗

PubMed2004

Aromaticity of organic heterocyclothiazenes and analogues.

Members of a series of carbon-poor sulfur-nitrogen heterocycles and polycycles are shown by direct ab initio ipsocentric calculation to support diatropic ring currents and hence to be aromatic on the basis of magnetic criteria. They include 7-cycles S(3)N(2)(CH)(2), S(3)N(3)(CH), and S(3)N(4) and 8-cycles S(2)N(4)(CH)(2) and S(2)N(2)(CH)(4), all with 10 pi electrons. The unknown trithiatetrazepine S(3)N(4) is predicted to be at least as aromatic as its known diaza and triaza homologues. Angular-momentum arguments show that the pi-electron-rich nature of (4n + 2) SN heterocycles is the key to their diatropic current. The Woodward dithiatetrazocine parent framework S(2)N(4)(CH)(2) supports a diatropic ring current, as does its analogue in which N and CH groups are formally exchanged. Formal expansion of (4n + 2)-pi carbocyclic systems by insertion of NSN motifs in every CC bond is predicted to lead to structures that support diatropic ring currents: explicit ab initio calculation of magnetic response predicts the 24-center, 30-pi-electron heterocycle S(6)N(12)(CH)(6), formally derived from benzene, to be aromatic on the basis of this criterion.

Journal Article↗

PubMed2004

Which pi-clamped conjugated monocycles exhibit ring currents?

Quenching/survival of ring currents in pi-clamped conjugated monocycles is controlled by the match or mismatch in parity between the frontier orbitals of the central pi-conjugated 4n+2/4n monocycle and those of the clamps. Changes in ring current are not primarily caused by bond alternation or 'Mills-Nixon' effects; current and geometry changes on clamping are both consequences of electronic structure.

Journal Article↗

PubMed2004

Ring currents as probes of the aromaticity of inorganic monocycles : P5-, As5-, S2N2, S3N3-, S4N3+, S4N42+, S5N5+, S42+ and Se42+.

Current-density maps were calculated by the ipsocentric CTOCD-DZ/6-311G** (CTOCD-DZ=continuous transformation of origin of current density-diamagnetic zero) approach for three sets of inorganic monocycles: S(4) (2+), Se(4) (2+), S(2)N(2), P(5) (-) and As(5) (-) with 6 pi electrons; S(3)N(3) (-), S(4)N(3) (+) and S(4)N(4) (2+) with 10 pi electrons; and S(5)N(5) (+) with 14 pi electrons. Ipsocentric orbital analysis was used to partition the currents into contributions from small groups of active electrons and to interpret the contributions in terms of symmetry- and energy-based selection rules. All nine systems were found to support diatropic pi currents, reinforced by sigma circulations in P(5) (-), As(5) (-), S(3)N(3) (-), S(4)N(3) (+), S(4)N(4) (2+) and S(5)N(5) (+), but opposed by them in S(4) (2+), Se(4) (2+) and S(2)N(2). The opposition of pi and sigma effects in the four-membered rings is compatible with height profiles of calculated NICS (nucleus-independent chemical shifts).

Journal Article↗