A frequent problem in computational modeling is the interconversion of chemical structures between different formats. While standard interchange formats exist (for example, Chemical Markup Language) and de facto standards have arisen (for example, SMILES format), the need to interconvert formats is a continuing problem due to the multitude of different application areas for chemistry data, differences in the data stored by different formats (0D versus 3D, for example), and competition between software along with a lack of vendor-neutral formats. We discuss, for the first time, Open Babel, an open-source chemical toolbox that speaks the many languages of chemical data. Open Babel version 2.3 interconverts over 110 formats. The need to represent such a wide variety of chemical and molecular data requires a library that implements a wide range of cheminformatics algorithms, from partial charge assignment and aromaticity detection, to bond order perception and canonicalization. We detail the implementation of Open Babel, describe key advances in the 2.3 release, and outline a variety of uses both in terms of software products and scientific research, including applications far beyond simple format interconversion. Open Babel presents a solution to the proliferation of multiple chemical file formats. In addition, it provides a variety of useful utilities from conformer searching and 2D depiction, to filtering, batch conversion, and substructure and similarity searching. For developers, it can be used as a programming library to handle chemical data in areas such as organic chemistry, drug design, materials science, and computational chemistry. It is freely available under an open-source license from http://openbabel.org
 .

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Open Babel: An open chemical toolbox

Quantification and variation of characteristic properties of different ligand classes is an exciting and rewarding research field. N-Heterocyclic carbenes (NHCs) are of special interest since their electron richness and structure provide a unique class of ligands and organocatalysts. Consequently, they have found widespread application as ligands in transition-metal catalysis and organometallic chemistry, and as organocatalysts in their own right. Herein we provide an overview on physicochemical data (electronics, sterics, bond strength) of NHCs that are essential for the design, application, and mechanistic understanding of NHCs in catalysis.

The Measure of All Rings—N‐Heterocyclic Carbenes

N atom, thus providing carbenes derived from pyrazolium, isothiazolium, and even quinolinium salts that contain a stabilizing heteroatom in a remote position (G-J in Figure 1). Recently, carbenes such as K, which are comprised of only one heteroatom and lack delocalization through the heterocycle, have been discovered as versatile ligands, thus constituting another important class of carbenes with low heteroatom stabilization. Both the synthesis of the organometallic complexes of these ligands as well as the (catalytic) properties of the coordinated metal centers generally show distinct differences, compared to the more classical NHC complexes, such as C2-metallated imidazolylidenes. This review intends to describe such differences and highlights the chemical peculiarities of these types of N-heterocyclic carbene complexes. It introduces, in a qualitative manner, the synthetic routes that have been established for the preparation of such complexes, covering the literature from the very beginning of activities in this area up to 2008. While specialized reviews on some aspects of the present topic have recently appeared,7 a comprehensive overview of the subject has not been available thus far. Rather than just being descriptive, the present account is mainly directed toward the impact of these still unusual metal-carbene bonding modes on the electronic properties and on the new catalytic applications that have been realized by employing such new carbene complexes. As a consequence of our focus on complexes with less-stabilized heterocyclic ligands, systems comprising acyclic carbenes have not been included, and the interested reader is, instead, referred to the pioneering and

/pdf/beyond-conventional-n-heterocyclic-carbenes-abnormal-remote-7nhdaf2lno.pdf

Beyond Conventional N-Heterocyclic Carbenes: Abnormal, Remote, and Other Classes of NHC Ligands with Reduced Heteroatom Stabilization

2.3.5. Multi-NHCs Linked by Spacers 3568 2.4. The Ag2O Route 3570 2.4.1. Feasibility 3570 2.4.2. Complications 3571 2.4.3. Theoretical Consideration 3572 2.5. Applications 3572 2.5.1. Ag(I)-NHCs in NHC Transfer 3572 2.5.2. Ag(I)-NHCs in Catalysis 3572 2.5.3. Ag(I)-NHCs in Medicine 3572 2.5.4. Ag(I)-NHCs in Nanomaterials 3573 3. Au(I)and Au(III)-NHCs 3573 3.1. Historical Background 3573 3.2. General Synthetic Methods 3573 3.3. Formation of Au(I)and Au(III)-NHCs 3574 3.3.1. Neutral [Au(NHC)L] 3574 3.3.2. Ionic [Au(NHC)L][Anion] 3576 3.3.3. Multinuclear Au(I)-NHCs 3578 3.3.4. Other Classes of Au(I)-NHCs 3578 3.3.5. Au(III)-NHC Complexes 3579 3.4. Applications 3579 3.4.1. Au(I)and Au(III)-NHCs in Catalysis 3579 3.4.2. Au(I)-NHCs in Medicine 3580 4. Cu(I)and Cu(II)-NHCs 3581 4.1. Historical Background 3581 4.2. General Synthetic Methods 3582 4.3. Formation of Cu(I)and Cu(II)-NHCs 3583 4.3.1. Complexes Containing the Cu(NHC)2 Core 3583 4.3.2. [Cu(NHC)(Halide)] 3583 4.3.3. [Cu(NHC)(Ligand)] 3584 4.3.4. Multinuclear Cu(I)and Cu(II)-NHCs 3589 4.4. Catalysis 3591 4.4.1. Past Events 3591 4.4.2. Recent Advancements 3591 5. Photoluminescence 3592 6. Conclusions 3594 7. Abbreviations 3594 8. Acknowledgments 3595 9. References 3595

Coinage Metal−N-Heterocyclic Carbene Complexes

The use of N-heterocyclic carbenes (NHCs) in chemistry has developed rapidly over the past twenty years. These interesting compounds are predominantly employed in organometallic chemistry as ligands for various metal centres, and as organocatalysts able to mediate an exciting range of reactions. However, the sheer number of NHCs known in the literature can make the appropriate choice of NHC for a given application difficult. A number of metrics have been explored that allow the electronic properties of NHCs to be quantified and compared. In this review, we discuss these various metrics and what they can teach about the electronic properties of NHCs. Data for approximately three hundred NHCs are presented, obtained from a detailed survey of the literature.

Quantifying and understanding the electronic properties of N-heterocyclic carbenes

We present a free web application for the calculation of the buried volume (% VBur) of NHC ligands. The web application provides a graphic and user-friendly interface to the SambVca program, developed for the calculation of % VBur values not only of NHC ligands but also of other classic organometallic ligands such as, for example, phosphanes and cyclopentadienyl-based ligands. To provide a reliable procedure for the calculation of % VBur values we tested our approach in the interpretation of the binding energies of NHC ligands in Cp*Ru(NHC)Cl complexes in terms of steric and electronic parameters.(© Wiley-VCH Verlag GmbH & Co. KGaA, 69451 Weinheim, Germany, 2009)

SambVca: A Web Application for the Calculation of the Buried Volume of N‐Heterocyclic Carbene Ligands

Determination of N-Heterocyclic Carbene (NHC) Steric and Electronic Parameters using the [(NHC)Ir(CO)2Cl] System

Thermodynamics of N-heterocyclic Carbene Dimerization: The Balance of Sterics and Electronics

The influence of thermal treatments and supercritical carbon dioxide extraction procedures on the crystal structure and morphology of sPS aerogels is investigated mainly by wide-angle X-ray diffraction and scanning electron microscopy. The use of supercritical CO2 extraction treatments allows the obtaining of high porosity aerogels with fibrillar morphology, not only exhibiting the nanoporous δ phase but also the dense γ and β crystalline phases. Moreover, a procedure to obtain high-porosity aerogels exhibiting the recently discovered nanoporous e-form is described. Measurements of the sorption capacity of organic molecules from diluted aqueous solutions, for aerogels presenting different crystalline phases, clearly indicate that e-form aerogels are the only ones suitable for detection and removal of long organic pollutants.

Syndiotatic Polystyrene Aerogels with β, γ, and ε Crystalline Phases

Two different kinds of organoclays were prepared by mixing a pristine montmorillonite and a double-chain ammonium salt in many different thermoplastic or elastomeric polymers. Independently of the chemical nature of the considered polymers, the obtained organoclays presented a basal spacing of 4 or 6 nm, when the mixing occurred in the absence or in the presence of a small amount of stearic acid (SA), respectively. X-ray diffraction and Fourier transform infrared measurements support the hypothesis that these two kinds of organoclays correspond to paraffin-type tilted and perpendicular bi-layer intercalates, respectively. The co-intercalation of SA molecules with the double-chain amphiphile is suggested, to explain the observed expansion of the clay interlayer distance. The obtained results suggest an easy way to control the organoclay structure in polymer composites. Moreover, the authors on the basis of these results propose a criticism to the extensive literature that systematically explains most d basal spacing increase observed for clays in polymer with the penetration of apolar polymer chains in the clay interlayer space. Copyright © 2010 John Wiley & Sons, Ltd.

Control of organoclay structure in hydrocarbon polymers

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