Synthesis, Reactivity and Coordination Chemistry of Group 9 PBP Boryl Pincer Complexes: [(PBP)M(PMe3)n] (M = Co, Rh, Ir; n = 1, 2).

The unsymmetrical diborane(4) derivative [(d(CH2P(iPr)2)abB)-Bpin] (1) proved to be a versatile PBP boryl pincer ligand precursor for Co(I) (2a, 4a), Rh(I) (2-3b) and Ir(I/III) (2-3c, 5-6c) complexes, in particular of the types [(d(CH2P(iPr)2)abB)M(PMe3)2] (2a-c) and [(d(CH2P(iPr)2)abB)M-PMe3] (2b-c). Whilst similar complexes have been obtained before, for the first time, the coordination chemistry of a homologous series of PBP pincer complexes, in particular the interconversion of the five- and four-coordinate complexes 2a-c/3a-c, was studied in detail. For Co, instead of the mono phosphine complex 2a, the dinitrogen complex [(d(CH2P(iPr)2)abB)Co(N2)(PMe3)] (4a) is formed spontaneously upon PMe3 abstraction from 2a in the presence of N2. All complexes were comprehensively characterised spectroscopically in solution via multinuclear (VT-)NMR spectroscopy and structurally in the solid state through single-crystal X-ray diffraction. The unique properties of the PBP ligand with respect to its coordination chemical properties are addressed.

Masked Amino Trimethyl Lock (H2 N-TML) Systems: New Molecular Entities for the Development of Turn-On Fluorophores and Their Application in Hydrogen Sulfide (H2 S) Imaging in Human Cells.

Masked trimethyl lock (TML) systems as molecular moieties enabling the bioresponsive release of compounds or dyes in a controlled temporal and spatial manner have been widely applied for the development of drug conjugates, prodrugs or molecular imaging tools. Herein, we report the development of a novel amino trimethyl lock (H2 N-TML) system as an auto-immolative molecular entity for the release of fluorophores. We designed Cou-TML-N3 and MURh-TML-N3 , two azide-masked turn-on fluorophores. The latter was demonstrated to selectively release fluorescent MURh in the presence of physiological concentrations of the redox-signaling molecule H2 S in vitro and was successfully applied to image H2 S in human cells.

How Strong is a Reverse Dative Bond? Compliance Constants as Unique Bond Strength Descriptors.

The concepts of bond strength and bond order are at the very heart of chemistry. Nevertheless, the study of local mechanical bond strengths in large polyatomic molecules is a nontrivial task. In a recent publication, Peters and Lehnert et al. [Inorg. Chem. 2020, 59 (20), 14967-14982] found a quite strong (reverse) dative Fe···B bond for a synthesized low-spin {FeNO}10 complex supported by an ambiphilic trisphosphineborane ligand. Their conclusion was, among other criteria, based on a surprisingly high Fe-B force constant of 1.56 mdyn/Å. Nevertheless, this high value might be based on numerical ambiguities of (rigid) real-space force constants, a flaw, that may affect many other combined spectroscopic and electronic structure studies.

Cyclopropylmethyldiphosphates are substrates for sesquiterpene synthases: experimental and theoretical results.

New homo-sesquiterpenes are accessible after conversion of presilphiperfolan-8ß-ol synthase (BcBOT2) with cyclopropylmethyl analogs of farnesyl diphosphate, and this biotransformation is dependent on subtle structural refinements. Two of the three cyclisation products are homo variants of germacrene D and germacrene D-4-ol while the third product reported contains a new bicyclic backbone for which no analogue in nature has been described so far. The findings on diphosphate activation are discussed and rationalised by relaxed force constants and dissociation energies computed at the DFT level of theory.

Cis- and trans-binding influences in [NUO·(N2)n].

Uranium nitride-oxide cations [NUO]+ and their complexes with equatorial N2 ligands, [NUO·(N2)n]+ (n = 1-7), were synthesized in the gas phase. Mass-selected infrared photodissociation spectroscopy and quantum chemical calculations confirm [NUO·(N2)5]+ to be a sterically fully coordinated cation, with electronic singlet ground state of 1A1, linear [NUO]+ core, and C5v structure. The presence of short N-U bond distances and high stretching modes, with slightly elongated U-O bond distances and lowered stretching modes, is rationalized by attributing them to cooperative covalent and dative [ǀN≡U≡Oǀ]+ triple bonds. The mutual trans-interaction through flexible electronic U-5f6d7sp valence shell and the linearly increasing perturbation with increase in the number of equatorial dative N2 ligands has also been explained, highlighting the bonding characteristics and distinct features of uranium chemistry.

Experimental and theoretical characterization of the strong effects on DNA stability caused by half-sandwich Ru(II) and Ir(III) bearing thiabendazole complexes.

The synthesis and characterization of two half-sandwich complexes of Ru(II) and Ir(III) with thiabendazole as ancillary ligand and their DNA binding ability were investigated using experimental and computational methods. 1H NMR and acid-base studies have shown that aquo-complexes are the reactive species. Kinetic studies show that both complexes bind covalently to DNA through the metal site and non covalently through the ancillary ligand. Thermal stability studies, viscosity, circular dichroism measurements and quantum chemical calculations have shown that the covalent binding causes breaking of the H-bonding between base pairs, bringing about DNA denaturation and compaction. Additionally, molecular dynamics (MD) simulations and quantum mechanics/molecular mechanics (QM/MM) calculations shed light into the binding features of the Ru(II) and Ir(III) complexes and their respective enantiomers toward double-helical DNA, highlighting the important role played by the NˆN ancillary ligand once the complexes are covalently linked to DNA. Moreover, metal quantification in the nucleus of SW480 colon adenocarcinoma cells were carried out by inductively coupled plasma-mass spectrometry (ICP-MS), both complexes are more internalized than cisplatin after 4 h of exposition. However, in spite of the dramatic changes in the helicity of the DNA secondary structure induced by these complexes and their nuclear localization, antiproliferative studies have revealed that both, Ru(II) and Ir(III) complexes, cannot be considered cytotoxic. This unexpected behavior can be justified by the fast formation of aquo-complexes, which may react with components of the cell culture medium or the cytoplasm compartment in such a way that they may become deactivated before reaching DNA.

Kinetic Studies of Donor-Acceptor Cyclopropanes: The Influence of Structural and Electronic Properties on the Reactivity.

The kinetics of (3+2) cycloaddition reactions of 18 different donor-acceptor cyclopropanes with the same aldehyde were studied by in situ NMR spectroscopy. Increasing the electron density of the donor residue accelerates the reaction by a factor of up to 50 compared to the standard system (donor group=phenyl), whereas electron-withdrawing substituents slow down the reaction by a factor up to 660. This behavior is in agreement with the Hammett substituent parameter σ. The obtained rate constants from the (3+2) cycloadditions correlate well with data from additionally studied (3+n) cycloadditions with a nitrone (n=3) and an isobenzofuran (n=4). A comparison of the kinetic data with the bond lengths in the cyclopropane (obtained by X-ray diffraction and computation), or the 1 H and 13 C NMR shifts, revealed no correlation. However, the computed relaxed force constants of donor-acceptor cyclopropanes proved to be a good indicator for the reactivity of the three-membered ring.

Structural Elucidation of Trace Components Combining GC/MS, GC/IR, DFT-Calculation and Synthesis-Salinilactones, Unprecedented Bicyclic Lactones from Salinispora Bacteria.

The analysis of volatiles released by marine Salinispora bacteria uncovered a new class of natural compounds displaying an unusual bicyclic [3.1.0]-lactone skeleton. Although only sub-µg quantities of the compounds were available, the combination of analytical methods, computational spectroscopy, and synthesis allowed unambiguous structural identification of the compounds, called salinilactones, without the need for isolation. Orthogonal hyphenated methods, GC/MS and solid-phase GC/IR allowed to propose a small set of structures consistent with the data. A candidate structure was selected by comparison of DFT-calculated IR spectra and the experimental IR-spectrum. Synthesis confirmed the structure and absolute configuration of three bicyclic lactones, salinilactones A-C. The salinilactones are structurally closely related to the A-factor class of compounds, autoregulators from streptomycete bacteria. They exhibited inhibitory activity against Salinispora and Streptomyces strains.

The Interstitial Carbon of the Nitrogenase FeMo Cofactor is Far Better Stabilized than Previously Assumed.

The first quantum-mechanical calculations of all relevant potential constants in both the iron-molybdenum cofactor and the iron-vanadium cofactor of nitrogenase suggest that the carbide is bound to the center of the enzyme much more strongly than hitherto assumed. Previous studies seemed to indicate a dummy function of the interstitial carbon, with a weak force constant (ca. 0.32 N cm-1 ). Our new investigations confirm a different picture: the central carbon atom binds the iron-sulfur cluster through six covalent C-Fe bonds. With a potential constant of more than 1.3 N cm-1 , the interstitial carbon also appears to be dynamically persistent. According to our investigations, the values for the elasticity within the iron-sulfur cluster have to be corrected too. These new details on the mechano-chemical properties of the FeMo cofactor will be important for elucidating the catalytic cycle of nitrogen fixation. By implementing our new algorithm in the freely available COMPLIANCE program, the dependence on the coordinates during the calculation of Hesse matrices is eliminated completely.

The Weakness of B-H⋠⋠⋠π Interactions: Much Softer than a Hydrogen Bond.

Recently, a new type of non-covalent interaction, the B-H⋅⋅⋅π interaction, was introduced. Nevertheless, the unique determination of individual, non-covalent bond strengths in complex molecular systems is a non-trivial task with often controversial results. The utilization of generalized compliance constants (relaxed force constants) is proposed as unique bond-strength descriptors for classical and non-classical hydrogen bonds. The strength of recently proposed B-H⋅⋅⋅π bonds is discussed.

Effective in silico prediction of new oxazolidinone antibiotics: force field simulations of the antibiotic-ribosome complex supervised by experiment and electronic structure methods.

We propose several new and promising antibacterial agents for the treatment of serious Gram-positive infections. Our predictions rely on force field simulations, supervised by first principle calculations and available experimental data. Different force fields were tested in order to reproduce linezolid's conformational space in terms of a) the isolated and b) the ribosomal bound state. In a first step, an all-atom model of the bacterial ribosome consisting of nearly 1600 atoms was constructed and evaluated. The conformational space of 30 different ribosomal/oxazolidinone complexes was scanned by stochastic methods, followed by an evaluation of their enthalpic penalties or rewards and the mechanical strengths of the relevant hydrogen bonds (relaxed force constants; compliance constants). The protocol was able to reproduce the experimentally known enantioselectivity favoring the S-enantiomer. In a second step, the experimentally known MIC values of eight linezolid analogues were used in order to crosscheck the robustness of our model. In a final step, this benchmarking led to the prediction of several new and promising lead compounds. Synthesis and biological evaluation of the new compounds are on the way.

Correction: Effective in silico prediction of new oxazolidinone antibiotics: force field simulations of the antibiotic-ribosome complex supervised by experiment and electronic structure methods.

[This corrects the article DOI: 10.3762/bjoc.12.45.].

Comment on "The Nature of the Fourth Bond in the Ground State of C2: The Quadruple Bond Conundrum".

Is it time to reconsider the whole concept of quadruple bonding? Contrary to the conclusion of Shaik and co-workers in Chem. Eur. J.­ 2014, 20, 6220­6232, there is no "deviation of C2 from the Badger Rule".

Oligoene-Based π-Helicenes or Dispiranes? Winding up Oligoyne Chains by a Multiple Carbopalladation/Stille/(Electrocyclization) Cascade.

A domino approach consisting of up to five consecutive steps to access either highly substituted dispiranes or π-helicenes from oligoyne chains is reported. The domino sequence consists of several carbopalladation reactions, a Stille cross-coupling to obtain the helicenes, and, depending on the steric demands of the helicene, a final 6π-electrocyclization to afford the dispiranes. Formally, the latter transformation contravenes the Woodward-Hoffmann rules, as revealed by X-ray crystallography of the dispirane. Additionally, the racemization barrier of the (Z,Z,Z)-triene-based helicene has been determined by a kinetic analysis and compared with results from density functional theory calculations. Characteristic points on the reaction coordinate were further analyzed according to their relaxed force constants (compliance constants).

π-Helicenes truncated to a minimum: access through a domino approach involving multiple carbopalladations and a Stille coupling.

A novel type of π-helicenes is reported, in which the π-system is truncated to an all-s-cis all-Z oligoene chain. A domino sequence was developed, consisting of up to four consecutive carbopalladation reactions and a terminal Stille cross-coupling, to generate these entities in one step from the respective linear oligoynes. Despite the minimal π-system, very high optical rotation values were encountered for the single enantiomers. X-ray crystallography confirmed their screw-shaped structure.

Sigillin†A, a unique polychlorinated arthropod deterrent from the snow flea Ceratophysella sigillata.

The snow flea Ceratophysella sigillata, a winter-active species of springtail, produces unique polychlorinated octahydroisocoumarins to repel predators. The structure of the major compound, sigillin A, was elucidated through isolation, spectroscopic analysis, and X-ray crystallography. Sigillin A showed high repellent activity in a bioassay with predatory ants. A promising approach for the total synthesis of members of this new class of natural compounds was also developed.

Preparation, structural properties and thermal isomerization of hex-3-ene-1,5-diyne bridged [2.2]paracyclophanes.

The [2.2]paracyclophane moiety is used as a spacer to connect the ends of a hex-3-ene-1,5-diyne unit, a π-system that on thermolysis usually cycloaromatizes to a benzene ring (Bergman cyclization). For the preparation of the pseudo-geminally-bridged system 9, the diacetylene 3 was chain-extended to the diol 16, which after conversion to the pseudo-geminal dibromide 17 was ring-closed by treatment with LiHMDS/HMPA to the [2.2]paracyclophane enediyne 9. Whereas the McMurry coupling of the pseudo-ortho bisaldehyde 24 resulted in the formation of the hexadienyne-bridged cyclophane 27, the pseudo-ortho-bridged hydrocarbon 11 was obtained by preparing first the diol 28 from 24, converting the latter into the dioxolane 29, which in the last step furnished the olefin 11 by treatment with Tf2 O/EtN(iPr)2 . The authentic Bergman product 10 of the pseudo-gem-bridged hexenediyne 9 was synthesized by a conventional sequence starting from the ethynyl formyl substrate 18. Since the pseudo-ortho-enediyne-bridged hydrocarbon 11 is thermally labile, its benzannelated derivate 34 was prepared. No classical Bergman cyclization reactions could be observed for any of the [2.2]paracyclophane-bridged hexenediynes prepared here. In the pseudo-gem-series the fulvenes 14 and 15 were the only products that could be identified under thermal conditions (McMurry coupling); the benzannelated substrate 34 gave the benzofulvene-bridged cyclophane 36 on photolysis. Bergman cyclizations yielding fulvene derivatives are extremely rare. The mechanism of the cyclization of 9 and 34 is discussed, using compliance constants. The structure assignments of the hydrocarbons synthesized in this study are based on spectroscopic studies as well as X-ray structural analyses for 9, 10, 11, 27, and 34.

K-H3C and K-Sn interactions in potassium trimethylstannyl complexes: a structural, mechanochemical, and NMR study.

A series of trimethylstannyl potassium complexes [K(L)SnMe3] with different auxiliary ligands L (L = 18-C-6, (TMEDA)2 (TMEDA = tetramethylethylenediamine), and (12-C-4)2) were synthesized by alkoxide-induced B-Sn bond cleavage. X-ray structure determinations were performed for all these complexes, and the structural chemistry was studied in detail. For L = 18-C-6 and (TMEDA)2 the solid state structures comprise polymeric [K(L)SnMe3]n chains containing bidentate trimethylstannyl anions bridging two [K(L)](+) ions, featuring unsymmetrical coordination of the [K(L)](+) ion by K-Sn and K-H3C interactions as a central structural motif. In contrast, for L = (12-C-4)2, separated [K(12-C-4)2](+) and [SnMe3](-) ions are observed. Unexpectedly, in the presence of tetrahydrofuran (THF), [K(18-C-6)SnMe3]n forms upon crystallization a new species consisting of separated [K(18-C-6)(THF)2](+) and [(Me2SnCH3)K(18-C-6)SnMe3](-) ions. In this unsymmetrical anion two trimethylstannyl anions coordinate a single [K(18-C-6)](+) ion; one trimethylstannyl anion coordinates via a K-Sn interaction, and the second coordinates via a K-H3C interaction. Simulations of the mechanochemical properties (compliance constants) applying approximated density functional theory revealed that both interactions are very soft and are of comparable strength. Moreover, according to our gas phase simulations the unsymmetrically coordinated [(Me2SnCH3)K(18-C-6)SnMe3](-) is indeed thermodynamically favored over both possible symmetrical isomers with either K-Sn or K-H3C coordination. Furthermore, the existence of multiple species due to the two coordination modes and aggregates of [K(18-C-6)SnMe3] in solution is suggested by NMR spectroscopic studies using (1)H, NOESY/ROESY, and (1)H pulsed field gradient diffusion experiments.

Predicting kinetically unstable C-C bonds from the ground-state properties of a molecule.

Determining the weakest link: A simple analysis pinpoints kinetically unstable carbon-carbon bonds. No prior knowledge of reaction pathways is necessary and the approach is particularly helpful for the prediction of novel molecules. krel =relaxed force constant, req =bond length.

Accessing unusual heterocycles: ring expansion of benzoborirenes by formal cycloaddition reactions.

Benzoborirenes are a very rare class of strained boron heterobicyclic systems. In this study a kinetically stabilized benzoborirene 1 is shown to react with multiple bonds of trimethylphosphine oxide, acetaldehyde, and tert-butyl isonitrile. The (2 + 2) cycloaddition product with trimethylphosphine oxide, benzo[c][1,2,5]oxaphosphaborole, has a long apical PO bond (194.0 pm) that must be considered on the border line between ionic and covalent according to the natural bond orbital, quantum theory of atoms in molecules, and compliance matrix approaches to the description of chemical bonding. The coordination compound between the benzoborirene and phosphine oxide was observed by NMR spectroscopy at 213 K. The Lewis acidity of 1 is similar to that of B(OCH2CF3)3 and B(C6F5)3 based on the 31P{1H} NMR chemical shift of the Lewis acid base complexes with trimethylphosphine oxide at 213 K. Benzoboriene 1 does not react with acetone, but forms a (2 + 2) cycloaddition product, an oxaborole, with acetaldehyde. In contrast, it undergoes a double (2 + 1) reaction with tert-butyl isonitrile to yield a boro-indane derivative under mild conditions. The observed reactivity of 1 is in agreement with computational analyses of the respective potential energy surfaces.