Spatial geometric arrangements of disulfide-crosslinked loops in nonplanar proteins

The method presented earlier [T. Kikuchi, G. Némethy, and H.A. Scheraga, (1986) J. Comput. Chem. 7 , 67] for the classification of patterns of the three-dimensional folding of a covalently crosslinked polypeptide chain has been extended to nonplanar proteins. The procedure described earlier was applicable only to proteins termed planar, i.e., with a connexity of the crosslinks (e.g., disulfide bonds) that can be represented in a planar diagram. The procedure described in the present work is applicable to any (planar or nonplanar) pattern of crosslinking. The classification is based on a systematic and objective method of enumeration of spatial geometric arrangements of loops (SGAL) using no information other than the location of the disulfide bonds in the amino acid sequence. Various SGAL classes correspond to the presence of different ways of mutual penetration of loops, called thrustings and entanglements. Information on SGAL classes can be of use in structural predictions of folding patterns of proteins.     

Mass spectrometric investigation of bimolecular compounds

Two points involving molecular structure have been investigated using mass spectrometry. First, mass spectra have been obtained that indicate a rapid means for differentiating bimolecular compounds from other structural isomers. Second, the mass spectrometric method has been used to evaluate bonding within bimolecular compounds. Quinone compounds have been reacted with dhydroxybenzene compounds to produce quinhydrone products, and upon mass spectrometric analysis, the quinhydrones decompose to regenerate derivatives of the starting materials. Evaluation of the decomposition products suggests that the hydroxyl hydrogens are involved in a resonance structure, and while in symmetrical quinhydrones, the hydroxyl hydrogens are probably associated equally with each reactant, unsymmetrical quinhydrones generate an unbalanced electronic distribution that eliminates the complete equivalency of the hydrogens.     

Solvent extraction studies of some cobalt(ii) chelates.

Extraction of radiolabeled cobalt(II) from aqueous solution into one or more solvents using 25 reagents was studied. Both reagent concentration and pH variation were investigated. The relevant association and partition constants for several of the better reagent-solvent systems were determined. These systems were hexanoic acid in I-hexanol, octanoic acid in I-octanol, and thenoyltrifluoroacetone in benzene.     

Determination of phosphite,hypophosphite, tellurium and mercury

A new catalytic oxidation procedure, involving the use of a cerium(IV) sulfate reagent in perchloric acid with a mixed silver(I)—manganese(II) perchlorate catalyst, has been developed for the determination of phosphite, hypophosphite, and tellurium. By this method 15—100 mg of phosphite, 5—35 mg of hypophosphite, and 10—105 mg of tellurium may be determined with standard deviations of ±0.17, ±0.32, and ±0.21% respectively. A direct titration procedure for mercury(I) is described using a ceric perchlorate solution as titrant with the mixed catalyst system. Samples from 65–510 mg may be analyzed with a standard deviation of ±0.36%.     

In Memoriam D. Stanley Tarbell (1913–1999), Chemist and Historian of Chemistry

Dr. Dean Stanley Tarbell, Distinguished Professor Emeritus of chemistry at Vanderbilt University, where he served on the faculty from 1967 to 1981, died on May 26, 1999 in Bolingbrook, Ill. Earlier he taught for many years and chaired the chemistry department at the University of Rochester. In retirement, he and his wife, Ann Tracy Tarbell, researched and wrote articles and books on the history of chemistry in the U.S. For his writings he received the American Chemical Societys Dexter Award for Distinguished Contributions to the History of Chemistry in 1989. He was an avid reader and book collector, a linguist who taught himself Arabic, Russian, and classical Greek, and a lifelong baseball fan.     

Structure of the first parallel DNA quadruplex-drug complex

The first crystal structure of a drug (daunomycin) bound to a parallel-stranded intermolecular telomeric G4 quadruplex (d(TGGGGT)4) has been determined to high resolution. A planar assemblage of three daunomycin molecules stacks onto the 5' end of the G4 column, with the daunosamine substituents occupying three of the four quadruplex grooves. The surface area of the terminal G-quartet in this parallel DNA quadruplex, presently occupied by three daunomycins, is sufficiently large that it could easily accommodate other potential telomerase inhibitors such as substituted porphyrins or telomestatin.     

Synthesis of 2,3,4,5-tetranitropyrrole

Dealkylation of 1-tert-butyl-2,3,4-trinitropyrrole in boiling trifluroacetic acid gave 2,3,4-trinitropyrrole, the structure of which was confirmed by X-ray crystallography. Treatment of this trinitropyrrole with nitric acid/oleum briefly at 60° gave 2,3,4,5-tetranitropyrrole.     

Heterogeneous activation of oxone using Co3O4

This study explores the potential of heterogeneous activation of Oxone (peroxymonosulfate) in water using cobalt oxides. Two commercially available cobalt oxides, CoO and Co3O4 (CoO.Co2O3) were tested for the activation of peroxymonosulfate and the consequent oxidation of 2,4-dichlorophenol (2,4-DCP) via a sulfate radical mechanism. Both systems, CoO/Oxone and Co3O4/Oxone, were tested at acidic and neutral pH and compared with the homogeneous Co(NO3)2/Oxone. The activity of these systems was evaluated on the basis of the induced transformation of 2,4-DCP as well as the dissolution of cobalt occurred after 2 h of reaction. It was observed that only Co3O4 activates peroxymonosulfate heterogeneously, with its heterogeneity being more pronounced at neutral pH. Both CoO and Co2O3 contained in Co3O4 might be responsible for the observed heterogeneity, and the relative mechanisms are further discussed here. To our knowledge, this is perhaps the first study that documents the heterogeneous activation of peroxymonosulfate with cobalt, the best-known catalyst-activator for this inorganic peroxide.     

C-Glycosylidene derivatives (exo-glycals): their synthesis by reaction of protected sugar lactones with tributylphosphonium ylids, conformational analysis and stereoselective reduction

Stabilised tributylphosphonium ylids Bu₃PCHCH(EWG), where EWG is CO₂Me, CO₂^tBu or CN, react with protected sugar lactones under mild conditions to give high yields of glycosylidene derivatives (4 and 5) with good Z/E selectivity. X-Ray crystallography shows that in the solid state the tetra-O-benzyl protected (Z)-glucosylideneacetonitrile (Z)-4c adopts a conformation intermediate between a boat and a twist-boat, whereas the isomeric galactose derivative (Z)-5c exists as a distorted chair. NMR data suggest that in solution chair-like conformations are again more favoured for galactosylidene derivatives than for their glucosylidene analogues. Solution phase NMR studies and molecular modelling show that the (E)-double bond geometry disfavours the chair-like geometry of the ring, even in the galactose series; this is consistent with the avoidance of allylic 1,3-strain. Reduction of the glycosylidene double bond to give stereoselective formation of β-C-glycoside derivatives may be achieved by using Et₃SiH-CF₃CO₂H or Et₃SiH-BF₃·Et₂O.     

A modified bischler-napieralski reaction. Synthesis of 2,3,4,9- tetrahydro-1H-pyrido[3,4-B]indole derivatives and their base-catalyzed transformation to N-acetyl-N-[2-[1 -acetyl-2-[1 -(acetyloxy)-1-propenyl]- 1H-indol-3-yl]ethyl]acetamides

The treatment of N-[2-(1H-indol-3-yl)ethyl]alkanamide, 1 (1), with phosphorus oxychloride under controlled conditions gave l-alkyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indol-1-ol, 2 . The reaction of 2 with acetic anhydride or with methyl isocyanate at room temperature resulted in the formation of amido carbinol 3 and urea carbinol 7, respectively. The former was transformed into amido ester 4 by boiling acetic anhydride. When the reaction of 3 with acetic anhydride was carried out in the presence of excess triethylamine at 105°, C-N bond cleavage of the tetrahydropyridine ring took place with concurrent bis(N-acetylation) to give the enol ester derivative 5 . The structures of all compounds are consistent with chemical and spectral evidence.