Hydrogen bonds in the tripeptide Pro-Leu-Gly-NH217O and 1H studies

¹⁷ONMR measurements of labeled Pro-Leu-Gly-NH₂ were carried out at different pH levels and in mixed solvents of water/acetonitrile. Complementary studies of the amide protons were carried out in acetonitrile-d₃. Only the prolyl $\text{C}\text{=}{}^{17}\text{O}$ group was sensitive to the pH level. Protonation of the amine group resulted in an upfield chemical shift of 18 ppm. The chemical shifts of each of the three oxygen sites was sensitive to the ratio water: acetonitrile. Solvent composition dependence of the chemical shift and linewidth suggests that the prolyl $\text{C}\text{=}{}^{17}\text{O}$ is involved in intramolecular hydrogen bond formation when Pro-Leu-Gly-NH₂ is dissolved in acetonitrile, while in water there is no intramolecular H bond.     

31P NMR lineshapes of β-P (ATP) in the presence of mg2+ and ca2+ : estimate of exchange rates

The ³¹ P NMR chemical shift of β-P of adenosine triphosphate (ATP) undergoes a substantial change (2̃–3 ppm) upon chelation of divalent ions such as Mg²⁺ or Ca²⁺. In the presence of nonsaturating amounts of Mg²⁺ or Ca²⁺, the lineshape of this resonance depends on the characteristic association and dissociation rates of these metal-ATP complexes. A procedure for computer simulation of this lineshape is outlined. A comparison of computer-simulated lineshapes with the experimental lineshapes obtained at 121 MHz was used to determine the following dissociation rate of Mg²⁺ and Ca²⁺ from their ATP complexes at 20°C and pH 8.0: Ca²⁺, > 3 × 10⁵ s^?1 (Hepes buffer); Mg²⁺, 1200 s^-1 (no buffer), 1000 s^-1 (Tris buffer) and 2100 s^?1 (Hepes buffer). The limits of error are ± 10% in these values. For the Mg²⁺ complexes, the rates were determined as a function of temperature to obtain activation energies (with a maximum deviation of 10% in the least-squares fit): 8.1 $\text{Kcal}\text{mole}$ (no buffer and Hepes buffer) and 6.8 $\text{kcal}\text{mole}$ (Tris buffer). Lineshapes of the β-Presonance simulated as a function of Mg²⁺ concentration, using 2100 s^?1 for the dissociation rate, are also presented. The computer simulation of lineshapes offers a reliable and straightforward method for the determination of exchange rates of diamagnetic cations from their ATP complexes, under a variety of sample conditions.     

Proton translocation associated with anaerobic transhydrogenation from glycerol 3-phosphate to fumarate in Escherichia coli.

An $\text{Escherichia}\text{coli}$ strain, that lacks aerobic glycerol 3-phosphate (G3P) dehydrogenase and succinate dehydrogenase, was grown anaerobically on glycerol and fumarate. The addition of fumarate to such cells resulted in the formation of dihydroxyacetone phosphate (DHAP) suggesting that G3P is oxidized to DHAP while fumarate is reduced to succinate. Associated with the transhydrogenation was an extrusion of protons from the cell into the incubation medium. The stoichiometry of protons extruded to DHAP formed was near 2. Everted membrane vesicles take up protons in the presence of added G3P and fumarate.     

Synthesis and relative stereochemistry of the four mercapturic acids derived from styrene oxide and N-acetylcysteine

The chemical reaction between (±)-styrene oxide and N-acetylcysteine produces both positional isomers ($\text{1}$ and $\text{2}$) as a mixture of diastereoisomers with a preference for the benzylic thioether isomer $\text{1}$ (2 : 1). Synthesis of the mercapturic acid conjugates from either (+)- or (?)-styrene oxide produces only two of the four possible stereoisomers. The single diastereoisomers of $\text{1}$ and $\text{2}$ were separated by high pressure liquid chromatography (HPLC) and identified by ¹H- and ¹³C-nuclear magnetic resonance (NMR). The relative stereochemistry at the benzylic carbon center of the mercapturic acid conjugates was assigned on the basis of the established chemical correlation between optically pure styrene oxide and its precursor mandelic acid, and considerations on the mechanism of ring opening of epoxides by sulfur nucleophiles. The stereochemical definition of the isomers $\text{3}$–$\text{6}$ should prove useful in investigations of the biotransformation of the glutathione (GSH) conjugates of styrene oxide.     

Characterization of the phase behavior of phosphonolipids in model and biological membranes by 31P-NMR

³¹P-NMR is used to characterize the phase behavior of phosphonolipids in both model and biological membranes. ($\text{1′,2′-}\text{Dipalmitoyl}\text{-sn-}\text{glyceryl)-2-aminoethylphosphonate}$ gives rise to static chemical shift tensor elements (?87, 5 and 63 ppm) which differ considerably from those reported for the analogous phospholipid, $\text{1,2-}\text{dipalmitoyl}\text{-sn-}\text{glycero-3-phosphoethanolamine}$ (?81, ?20 and 105 ppm). Phosphonolipid, as well as a mixture of phosphonolipid and $\text{1,2-}\text{dipalmitoyl}\text{-sn-}\text{glycero-3-phosphocholine}$, in aqueous dispersion gives rise to ³¹P spectra which may be interpreted in terms of lamellar structures. A mixture of phosphonolipid and egg phosphatidylethanolamine exhibits a bilayer-to-hexagonal phase transition with a concomitant decrease by one-half in the value of the ³¹P chemical shift anisotropies of both the phosphonate and phosphate resonances. The chemical shift anisotropy associated with phosphonolipid has been found to be consistently smaller than that observed for the analogous phospholipid. ³¹P-NMR spectra of total lipid extracts of Tetrahymena sp. indicate that both phospho- and phosphonolipids have a bilayer organization between ?20 and 20°C.     

Stereospeific 1H-NMR analysis of trimethylsilyl derivatives of glycerides with a chiral shift reagent

A proton magnetic resonance procedure with tri(3-heptafluorobutyryl-d-camphorato)praseodymium (III) as a chiral shift eagent has been developed to determine the enantimeric purity of monoglycerides 1,2-diglycerides and triglycerides with one mono-unsaturated fatty acid at position $\text{sn-1}$ or $\text{sn-3}$ and two saturated fatty acids at the two other glycerol positions. A model compound, 1-oleoyl-2,3-dipalmitoyl-sn-glycerol, was converted ito the trimethylsilyl either of 2,3-dipalmitoyl-an-glycerol by epoxidation of the double bond, followed by pancreatic hydrolysis and separation and trimethylsilylation of the resulting $\text{sn-1,2}$, and $\text{sn-2,3-}\text{diglycerides}$. This separation becomes feasible by the contribution of the epoxy group to the polarity of the diglyceride. The protons of the trimethysilyl ether group were used for determining the enantiomeric ratio. The addition of a chira shift reagent induces a useful enantiomeric splitting which allows the accurate determination of the ratio of both enantiomers. The trimethylsilyl emers of 1,2-diglycerides are better suited for this purpose than the acetyl compounds. For monoglycetides, the earlier published method with the diaceltates gives a better line separation in ¹H-NMR spectra.     

Purification and nucleoside composition of a Q* - containing aspartic acid tRNA from Drosophila.

One form of aspartic acid tRNA from $\text{Drosophila}$,$\text{melanogaster}$ (tRNA_2δ^Asp) is selectively bound to columns of Con A-Sepharose. Unlike the other Q-containing tRNAs of $\text{Drosophila}$, it therefore appears that tRNA^Asp contains the more highly modified nucleoside, Q¹ (mannose form) in its anticodon. This is further supported by the chromatographic insensitivity of tRNA_2δ^Asp to NaIO₄ treatment. Utilizing Con A-Sepharose chromatography, tRNA_2δ^Asp from $\text{Drosophila}$ was purified and its nucleoside composition determined by chemical tritium labelling. In addition to the major nucleosides, this tRNA contains rT, hU, m⁵C, ψ, and Q¹, but no other modified nucleosides. Its nucleoside composition is very similar to yeast tRNA^Asp.     

Marine sterols. XIII.★ Isolation and synthesis of 1β,3β,5,6β-tetrahydroxy-5α-androstan-17-one from the soft coral Sarcophyton glaucum

A new polyhydroxysterol 1β,3β,5,6β-tetrahydroxy-5α-androstan-17-one ($\text{1}$) was isolated from the soft coral $\text{Sarcophyton glaucum}$. The structure of $\text{1}$ was deduced from comparison of the spectral data with those of known 1β,3β,5α,6β-tetrahydroxysterols and confirmed by the synthesis starting from 1β,3β-dihydroxy-5,16-pregnadien-20-one ($\text{6a}$)     

5α,6α- AND 5β,6β-dichloromethylene adducts of 3β-acetoxy-5-androsten-17-one

Both the 5α, 6α- and 5β, 6β-dichloromethylene adducts ($\text{2a}$ and $\text{2b}$) of 3β-acetoxy-5-androsten-17-one ($\text{1}$) are produced when the latter is exposed to dichlorocarbene generated from chloroform and base by Phase Transfer Catalysis using ultrasound as a means of agitation. The ¹H NMR substituent effects of 5α, 6α- and 5β, 6β-dichloromethylene on the angular methyl groups (Zürcher values) are given. The ¹³C NMR spectra for both compounds are presented and discussed.     

Proton and carbon magnetic resonance studies of the synthetic polypentapeptide of elastin.

Proton and ¹³C magnetic resonance studies are reported on the synthetic polypentapeptide of elastin, HCO-(Val₍₁₎-Pro₍₂₎-Gly₍₃₎-Val₍₄₎-Gly₍₅₎)_n-Val-OMe, where n ∼- 18. Temperature and solvent dependence of peptide N$\text{H}$ chemical shift and solvent dependence of peptide carbonyl chemical shift were used to delineate these moieties preliminary to identification of secondary structure.Based on these studies it is proposed, for the organic solvents of dimethyl sulfoxide, methanol, and low-temperature trifluoroethanol, that dynamic hydrogen bonds form in order of decreasing frequency of occurrence between the Val₍₁₎$\text{C}$O and the Val₍₄₎ N$\text{H}$ (a β-turn), between the Gly₍₃₎ N$\text{H}$ and the Gly₍₅₎$\text{C}$O (an 11-atom, hydrogen-bonded ring), and a more limited interaction between the Gly₍₃₎$\text{C}$O and the Gly₍₅₎ N$\text{H}$ (a γ-turn).Arguments are presented that relate the conformational features proposed above to the coacervate, which is a filamentous state.     

Specific platinum chelation by the guanines of the deoxyhexanucleotide d(T-G-G-C-C-A) upon reaction with cis-[Pt(NH3)2(H2O)2](NO3)2

The stoichiometric reaction between d-TpGpGpCpCpA (d(T-G-G-C-C-A)) and $\text{cis}$-[Pt(NH₃)₂(H₂O)₂](NO₃)₂ (8.4 × 10^?6 to 1.3 × 10^?4M in water at pH 5.5–6) gives a single complex. High pressure gel permeation chromatography and pH-dependent ¹H NMR analyses of the nonexchangeable base protons, show that it is a platinum chelate with the $\text{cis}$-Pt^II(NH₃)₂ moiety bound to the two N7 atoms of the adjacent guanines. A 3 × 10^?3M reaction gives the same platinum chelate, via the formation of intermediate complexes, together with unsoluble adducts.     

Investigation of the binding of roxatidine acetate hydrochloride with cyclomaltoheptaose (β-cyclodextrin) using IR and NMR spectroscopy

NMR chemical shift changes of the cyclomaltoheptaose (β-cyclodextrin, β-CD) cavity protons as well as roxatidine acetate hydrochloride aromatic ring protons revealed the formation of a RAH–β-CD inclusion complex. Detailed FTIR and NMR spectroscopic (¹H NMR, COSY, NOESY, ROESY) studies have been done. The stoichiometry of the complex was determined to be 1:1, and the overall binding constant was also determined by Scott’s method. The NOESY spectrum confirmed the selective penetration of the aromatic ring of RAH into the β-CD cavity in comparison to that of the piperidine ring. The mode of penetration of the guest into the CD cavity and structure of the complex has been established.     

Mass spectrometry and 13C nuclear magnetic resonance spectroscopy of compounds modeling the glycopeptide linkage of glycoproteins

The properties of several compounds useful as models for three-dimensional conformational studies and the investigation of the chemical degradation of glycopeptide linkages both of the N- and O-glycosidic type are described. Using the method of differential chemical shift in H₂O and D₂O as solvents, the carbon NMR spectrum of N-acetylglucosaminylasparagine, 1-N-acetyl-β-d-glucopyranosylamine, and 1-N-acetyl-2-acetamido-β-d-glucopyranosylamine has been assigned. Electron impact mass spectra of the peracetylated derivatives of the latter two compounds show a peak apparently unique to glycopyranosylamides at $\text{m}\text{e}\text{= 269}$, no analog of which is observed in the mass spectra of other peracetylated sugars. As models of the α-O-glycosidic linkage, fully assigned carbon NMR spectra of α-methyl-N-acetylgalactosamine (GalNAc), α-methyl-3-O-methyl GalNAc,and -GlcNAc as well as the disaccharide Glc-β-1 → 3 GalNAc are reported. Because certain anomalies in the chemical shifts and ¹J_CH observed in the disaccharide and in O-glycosylated glycoproteins are not observed in the simple model compounds, they may result from conformational interactions in the glycopeptides.     

31P NMR studies of metabolism in Acanthamoebacastellanii: Polyphosphate release from encysted cells

${}^{31}\text{P NMR}$ studies of $\text{Acanthamoeba}\text{castellanii}$ have shown that encysting cells release polyphosphate into the encystment medium. Mature cysts contain low levels of polyphosphate, as do vegetative cells. Young cysts (7 days) show detectable levels of nucleotide diphosphates and triphosphate similar to those observed in vegetative cells. Mature cysts (90 days) show only excreted polyphosphate as well as a component which has a chemical shift of a phosphodiester. The inorganic phosphate peak in the cyst shows that the cyst milieu is liquid-like and that the intracellular environment maintains a pH between 6 and 7.5 in the presence of extracellular values from 4 to 9.     

Selective deuterium labeling of steroidal estrogens

Refluxing estrone ($\text{1}$) and equilenin ($\text{8}$) in methanol-OD under basic conditions places a deuterium atom at position 4 and 16, and for estradiol at position 4. The location of the label in ring A is confirmed by nmr examination of the aromatic protons. Milder procedures that can be used for labeling the $\text{ortho}$ and $\text{para}$ positions of phenol and the cresols were not successful among steroids. Using palladized charcoal and deuterium, the benzylic hydrogens of estrone can be exchanged. Following the same procedure, but using hydrogen for a back exchange, one deuterium atom remains at position 6 as shown by C¹³ nmr spectroscopy.     

Deamination of 2-amino-2-deoxyhexitols and of their per-O-methylated derivatives with nitrous acid

The products of nitrous acid deamination of per-O-methylated 2-amino-2-deoxy-d-glucitol and $\text{2-}\text{amino}\text{-2-}\text{deoxy}\text{-3-O-β-}\text{d}\text{-galactopyranosyl-}\text{d}\text{-glucitol}$ and its per-O-methylated derivative have been characterized by g.l.c.—mass spectrometry after treatment with sodium borodeuteride and further substitution by acetylation, methylation, or (trideuteriomethyl)ation. The results confirm that the most important reaction pathway (1) involves a 1 → 2-hydride shift to give $\text{2-}\text{deoxy-}\text{d}\text{-arabino-}\text{hexoses}$, but that significant side-reactions include (2) solvolytic displacement at C-2, (3) a 3 → 2-hydride shift, to give $\text{2-}\text{deoxy-}\text{d}\text{-erythro-3-}\text{hexuloses}$, and (4) a C-4→C-2 migration to give $\text{2-}\text{deoxy}\text{-2-C-}\text{(hydroxymethyl)-}\text{d}\text{-ribose}$ and -d-arabinose. Reactions (3) and (4) result in elimination of the original 3-O-substituents, with the exposure of new reducing groups, from oligosaccharides terminated by 3-O-substituted 2-amino-2-deoxyhexitols.     

Database proton NMR chemical shifts for RNA signal assignment and validation

The Biological Magnetic Resonance Data Bank contains NMR chemical shift depositions for 132 RNAs and RNA-containing complexes. We have analyzed the ¹H NMR chemical shifts reported for non-exchangeable protons of residues that reside within A-form helical regions of these RNAs. The analysis focused on the central base pair within a stretch of three adjacent base pairs (BP triplets), and included both Watson–Crick (WC; G:C, A:U) and G:U wobble pairs. Chemical shift values were included for all 4³ possible WC-BP triplets, as well as 137 additional triplets that contain one or more G:U wobbles. Sequence-dependent chemical shift correlations were identified, including correlations involving terminating base pairs within the triplets and canonical and non-canonical structures adjacent to the BP triplets (i.e. bulges, loops, WC and non-WC BPs), despite the fact that the NMR data were obtained under different conditions of pH, buffer, ionic strength, and temperature. A computer program (RNAShifts) was developed that enables convenient comparison of RNA ¹H NMR assignments with database predictions, which should facilitate future signal assignment/validation efforts and enable rapid identification of non-canonical RNA structures and RNA-ligand/protein interaction sites.     

I. A unique deaminated metabolite of sulfamethazine [4-amino-N-(4, 6-dimethyl-2-pyrimidinyl) benezenesulfonamide] in swine

¹⁴C-Sulfamethazine [4-amino-$\text{N}$-(4, 6-dimethyl-2-pyrimidinyl)- ¹⁴C-benzenesulfonamide] was administered orally to young, 21-kg male swine. A unique metabolite, $\text{N}$-(4, 6-dimethyl-2-pyrimidinyl)- ¹⁴C-benzenesulfonamide (¹⁴C-desaminosulfamethazine), was identified in skeletal muscle collected 24 hr after dosing. The structure of the metabolite was confirmed by synthesis, comparative electron impact mass spectrometry, chemical ionization mass spectrometry, and infrared spectroscopy.     

Probing the micelle/water interface by rapid laser-induced proton pulse

The laser-induced pH jump (Gutman, M. and Huppert, D.J. (1979) Biochem. Biophys. Methods 1, 9–19) has a time resolution capable of measuring the diffusion-controlled rate constant of proton binding. In the present study we employed this technique for measuring the kinetics of protonation-deprotonation of surface groups of macromolecules.The heterogeneous surface of proteins excludes them from serving as a simple model, therefore we used micelles of a neutral detergent (Brij 58) as a high molecular weight structure. The charge was varied by the addition of a low concentration of sodium dodecyl sulfate and the surface group with which the protons react was an adsorbed pH indicator (bromocresol green or neutral red).The dissociation of a proton from adsorbed bromocresol green is slower than that from free indicator. This effect is attributed to the enhanced stabilization of the acid form of the indicator in the pallisade region of the micelle. The $\text{p}\text{K}$ shift of bromocresol green adsorbed on neutral micelles is thus quantitatively accounted for by the decreased rate of proton dissociation. Indicators such as neutral red, which are more lipid soluble in their alkaline form, do not exhibit such decelerated proton dissociation in their adsorbed state nor a $\text{p}\text{K}$ shift on adsorption to neutral micelles.The protonation of an indicator is a diffusion-controlled reaction, whether it is free in solution or adsorbed on micelles. By varying the electric charge of the micelle this rate can be accelerated or decelerated depending on the total charge of the micelle. The micellar charge calculated from this method was corroborated by other measurements which rely only on equilibrium parameters.The high time resulation of the pH jump is exemplified by the ability to estimate the diffusion coefficient of protons through the hydrated shell of the micelle.