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Henry S Rzepa

Publications and source records attributed to Henry S Rzepa.

At least 19 recordsLinked to original sources
PubMed2006

The vicinal difluoro motif: The synthesis and conformation of erythro- and threo- diastereoisomers of 1,2-difluorodiphenylethanes, 2,3-difluorosuccinic acids and their derivatives.

BACKGROUND: It is well established that vicinal fluorines (RCHF-CHFR) prefer to adopt a gauche rather than an anti conformation when placed along aliphatic chains. This has been particularly recognised for 1,2-difluoroethane and extends to 2,3-difluorobutane and longer alkyl chains. It follows in these latter cases that if erythro and threo vicinal difluorinated stereoisomers are compared, they will adopt different overall conformations if the fluorines prefer to be gauche in each case. This concept is explored in this paper with erythro- and threo- diastereoisomers of 2,3-difluorosuccinates. RESULTS: A synthetic route to 2,3-difluorosuccinates has been developed through erythro- and threo- 1,2-difluoro-1,2-diphenylethane which involved the oxidation of the aryl rings to generate the corresponding 2,3-difluorosuccinic acids. Ester and amide derivatives of the erythro- and threo- 2,3-difluorosuccinic acids were then prepared. The solid and solution state conformation of these compounds was assessed by X-ray crystallography and NMR. Ab initio calculations were also carried out to model the conformation of erythro- and threo- 1,2-difluoro-1,2-diphenylethane as these differed from the 2,3-difluorosuccinates. CONCLUSION: In general the overall chain conformations of the 2,3-difluorosuccinates diastereoisomers were found to be influenced by the fluorine gauche effect. The study highlights the prospects of utilising the vicinal difluorine motif (RCHF-CHFR) as a tool for influencing the conformation of performance organic molecules and particularly tuning conformation by selecting specific diastereoisomers (erythro or threo).

Journal Article↗
PubMed2006

Studies in sigmatropic rearrangements of N-prenylindole derivatives--a formal enantiomerically pure synthesis of tryprostatin B.

Rearrangement of N(a)-prenyl-N(b)-acetyltryptamine, induced by BF3.Et2O at low temperature, leads to a 2-prenyl derivative, and thence to the tricyclic tryptamine 7 and the indoline 8. Similarly, N(a)-prenyl-N(b)-phthaloyl-l-tryptophan methyl ester furnished the corresponding 2-prenyl derivative 16, a known advanced precursor of tryprostatin B. Density functional (B3LYP) calculations for the putative rearrangement transition state for N-prenylskatole show that prior coordination of BF3 to the indolic nitrogen changes the character of the subsequent sigmatropic pericyclic shifts from being entirely covalent to acquiring a significant degree of ionic character. The shifting prenyl group favours the endo over the exo mode of the transition state by 4.1 kcal mol(-1).

Catalysis↗
PubMed2006

Synthetic, structural, mechanistic, and computational studies on single-site beta-diketiminate tin(II) initiators for the polymerization of rac-lactide.

A family of tin(II) complexes supported by beta-diketiminate ligands has been investigated as initiators for the polymerization of rac-lactide. Kinetic studies reveal a first-order dependence on [lactide], but with a significant induction period. Linear plots of M(n) versus conversion and [M](o)/[I](o) versus conversion, along with narrow molecular weight distributions (typically 1.07-1.10), are indicative of well-controlled, "living" polymerizations. Less sterically hindered derivatives promote faster propagation than their bulky analogues, in accord with a more accessible active site. Enhanced rates of polymerization are observed for ligands bearing halogenated N-aryl substituents, a consequence of the more Lewis acidic nature of the Sn(II) centers. All of the initiators exhibit a similar bias toward heterotactic polylactide, which is attributed to a chain-end control mechanism influenced predominantly by the presence of the Sn 5s(2) lone pair of electrons rather than the steric or electronic properties of the beta-diketiminate ligand. The tin(II) isopropyl-(S)-lactate complex, ((Me)BDI(DIPP))SnOCH(Me)COO(i)Pr (14), has been synthesized as a model compound for the propagating species by treatment of ((Me)BDI(DIPP))Sn(NMe(2)) with isopropyl-(S)-lactate. An X-ray structure determination showed that the lactate ligand forms a five-membered chelate ring with a weak donor bond from the carbonyl oxygen atom to the tin center. A B3LYP density functional computational study indicates that insertion of the first lactide monomer into the tin(II) alkoxide bond is facile, with the induction period arising from a slower insertion of the second (and possibly third and fourth) monomer units.

Crystallography, X-Ray↗
PubMed2006

A computational study of the nondissociative mechanisms that interchange apical and equatorial atoms in square pyramidal molecules.

The lowest energy transition state for the nondissociative apical/equatorial atom exchange mechanism for three square pyramidal AEX5 molecular species was calculated (CCSD(T)/pVTZ; B3LYP/pVTZ, aug-cc-pV5Z) to have a hemidirected geometry with C(s) symmetry for BrF5, IF5, and XeF5+. In contrast, holodirected C2v-symmetric transition states for this process were located for the AEX5 square pyramidal molecules ClF5, ICl5, and IBr5. Imaginary frequencies were calculated and examined in a visual/dynamic fashion to gain insight into these fluxional processes. Although both mechanisms exchange one apical for one equatorial atom in each cycle of motion, processes that pass through C2v transition states have characteristic features of the well-known Berry pseudorotation and Lever mechanisms while those which pass through transition states of C(s) symmetry have features that are a mixture of Berry, Lever, and turnstile-like character. Two periodic trends are observed: as the atomic number on the central atom increases (same terminal atoms), the barrier for apical/equatorial exchange and the value of the imaginary frequency both decrease. Similarly, as the atomic number of the terminal atoms increase (same central atom), the barrier for apical/equatorial exchange decreases, as does the computed imaginary frequency.

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

A double-twist Möbius-aromatic conformation of [14]annulene.

[structure: see text] B3LYP and KMLYP/6-31G(d) calculations predict a double-helical and chiral conformation of [14]annulene with the topological properties of a double-twist Möbius band as highly aromatic; its energy with respect to the known Hückel-aromatic conformation is predicted to be stabilized by suitable ring substitution.

Journal Article↗
PubMed2005

Double-twist Möbius aromaticity in a 4n+ 2 electron electrocyclic reaction.

One transition state for the 10 electron (4n+ 2) electrocyclisation of Z,E,Z-decapentaene is predicted to have the properties of a double-twist Möbius strip, with delocalised bond lengths and the NICS(0) magnetic index typical of aromaticity; a 5,6-di-(t)Bu substituted decapentaene is predicted to react in this mode in preference to the competitive six-electron electrocyclisation.

Journal Article↗
PubMed2005

A global resource for computational chemistry.

A modular distributable system has been built for high-throughput computation of molecular structures and properties. It has been used to process 250,000 compounds from the NCI database and to make the results searchable by structures and properties. The IUPAC/NIST InChI specification and algorithm has been used to index the structures and enforce integrity during computation. A number of novel features of the PM5 Hamiltonian were identified as a result of the high-throughput approach. The system and the data can be redistributed and reused and promote the value of computed data as a primary chemical resource.

Benzoquinones↗
PubMed2005

Communication and re-use of chemical information in bioscience.

The current methods of publishing chemical information in bioscience articles are analysed. Using 3 papers as use-cases, it is shown that conventional methods using human procedures, including cut-and-paste are time-consuming and introduce errors. The meaning of chemical terms and the identity of compounds is often ambiguous. valuable experimental data such as spectra and computational results are almost always omitted. We describe an Open XML architecture at proof-of-concept which addresses these concerns. Compounds are identified through explicit connection tables or links to persistent Open resources such as PubChem. It is argued that if publishers adopt these tools and protocols, then the quality and quantity of chemical information available to bioscientists will increase and the authors, publishers and readers will find the process cost-effective.

Archives↗
PubMed2005

Chemistry in bioinformatics.

Chemical information is now seen as critical for most areas of life sciences. But unlike Bioinformatics, where data is openly available and freely re-usable, most chemical information is closed and cannot be re-distributed without permission. This has led to a failure to adopt modern informatics and software techniques and therefore paucity of chemistry in bioinformatics. New technology, however, offers the hope of making chemical data (compounds and properties) free during the authoring process. We argue that the technology is already available; we require a collective agreement to enhance publication protocols.

Access to Information↗
PubMed2005

A computational analysis of the ring-opening polymerization of rac-lactide initiated by single-site beta-diketiminate metal complexes: defining the mechanistic pathway and the origin of stereocontrol.

The ring-opening polymerization of rac-lactide at a beta-diketiminate magnesium center, [HC{CMeN-2,6-(i)Pr(2)C(6)H(3)}(2)]Mg(OMe)(THF), has been investigated using a B3-LYP density functional procedure employing three different layers of basis set: 6-311G(3d) at the Mg center, 6-31G(d) for both the ligand skeleton and the monomer, and a STO-3G basis set at the bulky 2,6-diisopropylphenyl substituents. By studying the consecutive ring-opening of two lactide molecules, clear conclusions are drawn regarding both the mechanism of ring-opening and the origin of heterotactic stereocontrol observed with such initiators. Polymerization proceeds via two major transition states, an observation applicable to other coordinative initiator systems, with the highest energy transition state dictating the stereochemistry of monomer insertion. In the beta-diketiminate magnesium system, a detailed examination of the rate-limiting second transition state geometries reveals that heterotactic poly(lactic acid) arises via the minimization of several steric interactions, possibly reinforced by an attractive CH...pi interaction.

Journal Article↗
PubMed2004

Foliacenes: ab initio modeling of metallocomplexes exhibiting a unique form of 16-electron, metal-induced aromaticity.

Ab initio calculations predict that the cyclic trefoilenes 2 can be stabilized by formation of a complex 4 with early transition metals. The metal atom within the complex is nested within the carbon ring and is considerably closer to the ring centroid than in traditional metallocene complexes. Stabilization is explained by a unique form of 16-electron delocalization involving the metal atom, for which we suggest the name "foliate aromaticity". The aromaticity of various polyfoliate systems such as 9 suggests this 16-electron motif is more robust than Clar-like aromatic 6pi-sextets. The open hemisphere of the metal in such foliacene complexes is predicted to coordinate a variety of ligands.

Journal Article↗
PubMed2004

Representation and use of chemistry in the global electronic age.

We present an overview of the current state of public semantic chemistry and propose new approaches at a strategic and a detailed level. We show by example how a model for a Chemical Semantic Web can be constructed using machine-processed data and information from journal articles.

Journal Article↗
PubMed2003

Möbius bis and tris-spiroaromatic systems.

We propose that a general class of bis and tris-spiro 7-membered ring systems with a common atom X, of which there are a number of examples characterised crystallographically, can in fact be considered as spiroaromatic molecules in which each ring exhibits some degree of Möbius 4n pi-electron aromaticity. The aromaticity is probed as a function of the spiro-atom using ab initio calculations of the NICS(0) values, which indicate that the Möbius-aromaticity increases as the spiro-atom is changed e.g. from Al to P, and from e.g. P to As.

Journal Article↗