Ammonium cyanate shows N-H...N hydrogen bonding, not N-H...O

The transformation of ammonium cyanate into urea, first studied over 170 years ago by W?hler and Liebig, has an important place in the history of chemistry. To understand the nature of this solid state reaction, knowledge of the crystal structure of ammonium cyanate is a prerequisite. Employing neutron powder diffraction, we demonstrate conclusively that, in the structure of ammonium cyanate, the NH(4)(+) cation forms N-H...N hydrogen bonds to four cyanate N atoms at alternate corners of a distorted cube, rather than our previously proposed alternative arrangement with N-H...O hydrogen bonds to cyanate O atoms at the other four corners.     

Systems-based design of bi-ligand inhibitors of oxidoreductases: filling the chemical proteomic toolbox

Genomics-driven growth in the number of enzymes of unknown function has created a need for better strategies to characterize them. Since enzyme inhibitors have traditionally served this purpose, we present here an efficient systems-based inhibitor design strategy, enabled by bioinformatic and NMR structural developments. First, we parse the oxidoreductase gene family into structural subfamilies termed pharmacofamilies, which share pharmacophore features in their cofactor binding sites. Then we identify a ligand for this site and use NMR-based binding site mapping (NMR SOLVE) to determine where to extend a combinatorial library, such that diversity elements are directed into the adjacent substrate site. The cofactor mimic is reused in the library in a manner that parallels the reuse of cofactor domains in the oxidoreductase gene family. A library designed in this manner yielded specific inhibitors for multiple oxidoreductases.     

Mechanism of [M + H]<Superscript>+</Superscript> formation in photoionization mass spectrometry

In this paper we examine the mechanism of [M + H]+ (henceforth MH+) formation by direct photoionization. Based on comparisons of the relative abundance of M+ and MH+ ions for photoionization of a variety of compounds M as vapor in air versus in different solvents, we conclude that the mechanism is M + hnu --> M+ + e- followed by the reaction M+ + S --> MH+ + S(-H). The principal evidence for molecular radical ion formation M+ followed by hydrogen atom abstraction from protic solvent S are: (1) Nearly exclusive formation of M+ for headspace ionization of M in air, (2) significant relative abundance of MH+ in the presence of protic solvents (e.g., CH3OH, H2O, c-hexane), but not in aprotic solvents (e.g., CCl4-), (3) observation of induced equilibrium oscillations in the abundance of MH+ and M+, and (4) correlation of the ratio of MH+/M+ to reaction length in the photoionization source. Thermodynamic models are advanced that explain the qualitative dependence of the MH+/M+ equilibrium ratio on the properties of solvent S and analyte M. Though the hydrogen abstraction reaction is endothermic in most cases, it is shown that the equilibrium constant is still expected to be much greater than unity in most of the cases studied due to the very slow reverse reaction involving the very low abundant MH+ and S(-H) species.     

Conformational landscape surfing induced by off-on pi-pi stacking in a porphyrin-quinone dyad

A covalently linked porphyrin-quinone dyad crystallizes with two orientations of the quinone, extended away from (off) and cofacial with the porphyrin macrocycle (on), which induce different conformations of the macrocycle and model the recently proposed structural effect of a nearby residue on the heme prosthetic group of a nitric oxide synthase.     

Catalyzed double Michael addition of anilines to vinyl sulfone

Substituted anilines and vinyl sulfone undergo a facile double Michael addition to form substituted phenylthiomorpholine dioxide, catalyzed with AlCl₃ or H₃PO₄. Scope and conditions were explored.     

Theoretical studies on the hydrolysis of mono-phosphate and tri-phosphate in gas phase and aqueous solution

Phosphate hydrolysis by GTPases plays an important role as a molecular switch in signal transduction and as an initiator of many other biological processes. Despite the centrality of this ubiquitous reaction, the mechanism is still poorly understood. As a first step to understand the mechanisms of this process, the nonenzymatic hydrolysis of mono-phosphate and tri-phosphate esters were systematically studied in gas phase and aqueous solution using hybrid density functional methods. The dielectric effect of the environment on the energetics of these processes was also explored. Theoretical results show that for mono-phosphate ester, the dissociative pathway is much more favorable than the associative pathway. However, the reaction barriers for the dissociative and associative pathways of tri-phosphate hydrolysis are very close in aqueous solution, though the dissociative pathway is more favorable in the gas phase. High dielectric solvents, such as water, significantly lower the activation barrier of the associative pathway due to the greater solvation energy of the associative transition states than that of the reactant complex. By contrast, the barrier of the dissociative pathway, with respect to the gas phase, is less sensitive to the surrounding dielectric. In the associative hydrolysis pathway of the tri-phosphate ester, negative charge is transferred from the gamma-phosphate to beta-phosphate through the bridging ester oxygen and results in Pgamma-O bond dissociation. No analogous charge transfer was observed in the dissociative pathway, where Pgamma-O bond dissociation resulted from proton transfer from the gamma-phosphate to the bridge oxygen. Finally, the active participation of local water molecules can significantly lower the activation energy of the dissociative pathway for both mono-phosphate and tri-phosphate.     

The synthesis and reactivity of the heptanuclear dianion [Os7(CO)20]2− including the synthesis and structural characterizations of the compounds [Os7(CO)20(AuPEt)3 2] and [Os8(CO)20(η6-C6H6]

Reduction of the heptaosmium cluster [Os₇(CO)₂₁] With [Et₄N][NH₄) gives the cluster dianion [Os₇(CO)₂₀]^2–,1, in high yield. The reaction of the dianion with [AuPR ₃Cl] (R=Et or Ph) in the presence of TlPF₆ forms [Os₇((CO)₂₀(AuPR ₃)₂] [R=Et (2a);R = Ph(2b)] in 80% yield, while the corresponding reaction with (Os(C₆H₆)(CH₃CN)₃]²⁺ gives [Os₈(CO)₂₀ ( ⁶-C₆H₆)] (3) in reasonable yield (ca. 30%). The dianion,1, and the clusters2 and3 have been fully characterized by bout spectroscopic and crystallographic methods. The crystal structure of the [Ph₄P]⁺ salt of1 shows that the metals in the anion adopt a capped octahedral geometry, with all twenty carbonyl ligands in terminal sites. The metal core geometry in2a is best described as a tricapped octahedron, and is based on the structure of the dianion1 with two adjacent octahedral faces capped by the Au atoms of the two AuPEt₃ groups. In a similar fashion, the geometry of3 is related to that of1 with the addition of an Os(C₆H₆) unit capped to a triangular face, to give a bicapped octahedral framework.     

Ramsey partitions of integers and pair divisions

Ifk ₁ andk ₂ are positive integers, the partitionP = (₁,₂,..., _n ) ofk ₁+k ₂ is said to be a Ramsey partition for the pairk ₁,k ₂ if for any sublistL ofP, either there is a sublist ofL which sums tok ₁ or a sublist ofP –L which sums tok ₂. Properties of Ramsey partitions are discussed. In particular it is shown that there is a unique Ramsey partition fork ₁,k ₂ having the smallest numbern of terms, and in this casen is one more than the sum of the quotients in the Euclidean algorithm fork ₁ andk ₂.An application of Ramsey partitions to the following fair division problem is also discussed: Suppose two persons are to divide a cake fairly in the ratiok ₁k ₂. This can be done trivially usingk ₁+k ₂-1 cuts. However, every Ramsey partition ofk ₁+k ₂ also yields a fair division algorithm. This method yields fewer cuts except whenk ₁=1 andk ₂=1, 2 or 4.     

How to be sure of finding a root of a complex polynomial using Newton's method

The trouble with Newton's method for finding the roots of a complex polynomial is knowing where to start the iteration. In this paper we apply the theory of rational maps and some estimates based on distortion theorems for univalent functions to find lower bounds, depending only on the degreed, for the size of regions from which the iteration will certainly converge to a root. We can also bound the number of iterations required and we give a method that works for every polynomial and takes at most some constant timesd ²(logd)² log(d ³/) iterations to find one root to within an accuracy of .     

Base-assisted intramolecular 6-acetoxypyranone-acetylene [5+2] cycloaddition. Synthesis and reactivity of novel oxa-tricyclo[5.3.1.0]undecenones

The synthesis of 3,11-dioxatricyclo[5.3.1.0^1,5]undeca-5,9-dien-8-ones is reported from suitable 5-substituted furfuryl alcohols bearing an acetylenic side-chain. Successive peracid-mediated oxidative rearrangement of furan carbinols and base-assisted intramolecular 1,3-dipolar cycloaddition afforded oxygen-bridged tricyclo-undecane derivatives. Stereoselective transformations of cycloadducts are also discussed.