Differentiation of Boc‐protected α,δ‐/δ,α‐ and β,δ‐/δ,β‐hybrid peptide positional isomers by electrospray ionization tandem mass spectrometry

Two new series of Boc‐N‐α,δ‐/δ,α‐ and β,δ‐/δ,β‐hybrid peptides containing repeats of L ‐Ala‐δ⁵‐Caa/δ⁵‐Caa‐L ‐Ala and β³‐Caa‐δ⁵‐Caa/δ⁵‐Caa‐β³‐Caa (L ‐Ala = L ‐alanine, Caa = C‐linked carbo amino acid derived from D ‐xylose) have been differentiated by both positive and negative ion electrospray ionization (ESI) ion trap tandem mass spectrometry (MS/MS). MSⁿ spectra of protonated isomeric peptides produce characteristic fragmentation involving the peptide backbone, the Boc‐group, and the side chain. The dipeptide positional isomers are differentiated by the collision‐induced dissociation (CID) of the protonated peptides. The loss of 2‐methylprop‐1‐ene is more pronounced for Boc‐NH‐L ‐Ala‐δ‐Caa‐OCH₃ (1), whereas it is totally absent for its positional isomer Boc‐NH‐δ‐Caa‐L ‐Ala‐OCH₃ (7), instead it shows significant loss of t‐butanol. On the other hand, second isomeric pair shows significant loss of t‐butanol and loss of acetone for Boc‐NH‐δ‐Caa‐β‐Caa‐OCH₃ (18), whereas these are insignificant for its positional isomer Boc‐NH‐β‐Caa‐δ‐Caa‐OCH₃ (13). The tetra‐ and hexapeptide positional isomers also show significant differences in MS² and MS³ CID spectra. It is observed that ‘b’ ions are abundant when oxazolone structures are formed through five‐membered cyclic transition state and cyclization process for larger ‘b’ ions led to its insignificant abundance. However, b₁⁺ ion is formed in case of δ,α‐dipeptide that may have a six‐membered substituted piperidone ion structure. Furthermore, ESI negative ion MS/MS has also been found to be useful for differentiating these isomeric peptide acids. Thus, the results of MS/MS of pairs of di‐, tetra‐, and hexapeptide positional isomers provide peptide sequencing information and distinguish the positional isomers. Copyright © 2010 John Wiley & Sons, Ltd.     

17‐Oxo‐5α‐androstane‐3α,4β‐diyl diacetate and 17‐oxo‐5β‐androstane‐3α,4β‐diyl diacetate

The title compounds, both C₂₃H₃₄O₅, are the 5α and 5β configurations of two diacetate epimers. The 5β‐diacetate crystallizes in an hexagonal structure, unusual for steroid molecules. The unit cell has an accessible solvent volume of 358 ų, responsible for clathrate behaviour. The 5β‐epimer also features some shorter than average bond lengths in the 3α,4β‐acetoxy groups. The conformations of the molecules of both epimers are compared with those obtained through abinitio quantum chemistry calculations. Cohesion of the crystals can be attributed to van der Waals and weak molecular C—H⋯O interactions.     

The Crystal Structure of ζ2‐Al3Cu4‐δ

The crystal structure of the ζ₂‐phase Al₃Cu_4‐δ was determined by means of X‐ray powder diffraction: a = 409.72(1) pm, b = 703.13(2) pm, c = 997.93(3) pm, space group Imm2, Pearson symbol oI24‐3.5, R_I = 0.0696. ζ₂‐Al₃Cu_4‐δ forms a distinctive a × √3a × 2c superstructure of a metal deficient Ni₂In‐type‐related structure. The phase is meta‐stable at ambient temperature. Between 400 °C and 450 °C it decomposes into ζ₁‐Al₃Cu₄ and η₂‐AlCu. Entropic contributions to the stability of ζ₂‐Al₃Cu_4‐δ are reflected in three statistically or partially occupied sites.     

β‐CdC2O4

Crystals of an­hydrous cadmium oxalate, β‐[Cd(C₂O₄)], have been synthesized hydro­thermally and the crystal structure solved using single‐crystal X‐ray diffraction data. The Cd and oxalate ions lie about independent inversion centres. The structure consists of a three‐dimensional framework built from sheets of cadmium octahedra linked together by oxalate groups.     

β‐Tl2SO4

The ambient‐temperature form of dithallium sulfate, β‐Tl₂SO₄, is similar to β‐K₂SO₄ and is characterized by isolated sulfate tetrahedra and two different thallium sites with coordination numbers 9 and 11. All the atoms, except one O atom, lie on mirror planes. In spite of there being a high concentration of Tl⁺ cations, the stereochemical activity of the 6s² pairs is low, similar to that of isotypic Tl₂XO₄ compounds (X = Cr and Se). This behaviour is the consequence of both weak Tl—O bonds and strong X—O bonds, because in a Tl—O—X linkage the electronic cloud of the O²⁻ anion is strongly distorted and displaced towards X, resulting in a low negative charge in the face of the Tl atom. Consequently, the Coulombic repulsions between the lone pair and the O²⁻ anions are weak. All of the Tl₂XO₄ compounds exhibit the same open packing of A⁺ cations and [XO₄]²⁻ anions as their isotypic alkali counterparts.     

13‐cis‐β,β‐Carotene and 15‐cis‐β,β‐carotene

13‐cis‐β,β‐Carotene, C₄₀H₅₆, crystallizes with a complete molecule in the asymmetric unit, whereas 15‐cis‐β,β‐carotene, also C₄₀H₅₆, has twofold symmetry about an axis through the central bond of the polyene chain. The polyene methyl groups are arranged on one side of the polyene chains for each molecule and the 6‐s‐cisβ end groups, with the cyclohexene rings in half‐chair conformations, are twisted out of the planes of the polyene chains by angles ranging from 41.37 (17) to 52.2 (4)°. The molecules in each structure pack so that the arms of one occupy the cleft of the next, and there is significant π–π stacking of the almost‐parallel polyene chains of the 15‐cis isomer, which approach at distances of 3.319 (1)–3.591 (1) Å.     

5β,6β‐Epoxy‐17‐oxoandrostan‐3β‐yl acetate and 5β,6β‐epoxy‐20‐oxopregnan‐3β‐yl acetate

In the title compounds, C₂₁H₃₀O₄, (I), and C₂₃H₃₄O₄, (II), respectively, which are valuable intermediates in the synthesis of important steroid derivatives, rings A and B are cis‐(5β,10β)‐fused. The two molecules have similar conformations of rings A, B and C. The presence of the 5β,6β‐epoxide group induces a significant twist of the steroid nucleus and a strong flattening of the B ring. The different C17 substituents result in different conformations for ring D. Cohesion of the molecular packing is achieved in both compounds only by weak intermolecular interactions. The geometries of the molecules in the crystalline environment are compared with those of the free molecules as given by ab initio Roothan Hartree–Fock calculations. We show in this work that quantum mechanical ab initio methods reproduce well the details of the conformation of these molecules, including a large twist of the steroid nucleus. The calculated twist values are comparable, but are larger than the observed values, indicating a possible small effect of the crystal packing on the twist angles.     

Preparation of Protected β2‐ and β3‐Homocysteine, β2‐ and β3‐Homohistidine,and β2‐Homoserine for Solid‐Phase Syntheses

The Ser, Cys, and His side chains play decisive roles in the syntheses, structures, and functions of proteins and enzymes. For our structural and biomedical investigations of β‐peptides consisting of amino acids with proteinogenic side chains, we needed to have reliable preparative access to the title compounds. The two β³‐homoamino acid derivatives were obtained by Arndt–Eistert methodology from Boc‐His(Ts)‐OH and Fmoc‐Cys(PMB)‐OH (Schemes 2–4), with the side‐chain functional groups' reactivities requiring special precautions. The β²‐homoamino acids were prepared with the help of the chiral oxazolidinone auxiliary DIOZ by diastereoselective aldol additions of suitable Ti‐enolates to formaldehyde (generated in situ from trioxane) and subsequent functional‐group manipulations. These include OH→O^tBu etherification (for β²hSer; Schemes 5 and 6), OH→STrt replacement (for β²hCys; Scheme 7), and CH₂OH→CH₂N₃→CH₂NH₂ transformations (for β²hHis; Schemes 9–11). Including protection/deprotection/re‐protection reactions, it takes up to ten steps to obtain the enantiomerically pure target compounds from commercial precursors. Unsuccessful approaches, pitfalls, and optimization procedures are also discussed. The final products and the intermediate compounds are fully characterized by retention times (t_R), melting points, optical rotations, HPLC on chiral columns, IR, ¹H‐ and ¹³C‐NMR spectroscopy, mass spectrometry, elemental analyses, and (in some cases) by X‐ray crystal‐structure analysis.     

Methyl 4‐O‐β‐D‐mannopyranosyl β‐D‐xylopyranoside

Methyl β‐D‐mannopyranosyl‐(1→4)‐β‐D‐xylopyranoside, C₁₂H₂₂O₁₀, (I), crystallizes as colorless needles from water, with two crystallographically independent molecules, (IA) and (IB), comprising the asymmetric unit. The internal glycosidic linkage conformation in molecule (IA) is characterized by a ϕ′ torsion angle (O5′_Man—C1′_Man—O1′_Man—C4_Xyl; Man is mannose and Xyl is xylose) of −88.38 (17)° and a ψ′ torsion angle (C1′_Man—O1′_Man—C4_Xyl—C5_Xyl) of −149.22 (15)°, whereas the corresponding torsion angles in molecule (IB) are −89.82 (17) and −159.98 (14)°, respectively. Ring atom numbering conforms to the convention in which C1 denotes the anomeric C atom, and C5 and C6 denote the hydroxymethyl (–CH₂OH) C atom in the β‐Xylp and β‐Manp residues, respectively. By comparison, the internal glycosidic linkage in the major disorder component of the structurally related disaccharide, methyl β‐D‐galactopyranosyl‐(1→4)‐β‐D‐xylopyranoside), (II) [Zhang, Oliver & Serriani (2012). Acta Cryst. C 68 , o7–o11], is characterized by ϕ′ = −85.7 (6)° and ψ′ = −141.6 (8)°. Inter‐residue hydrogen bonding is observed between atoms O3_Xyl and O5′_Man in both (IA) and (IB) [O3_Xyl...O5′_Man internuclear distances = 2.7268 (16) and 2.6920 (17) Å, respectively], analogous to the inter‐residue hydrogen bond detected between atoms O3_Xyl and O5′_Gal in (II). Exocyclic hydroxymethyl group conformation in the β‐Manp residue of (IA) is gauche–gauche, whereas that in the β‐Manp residue of (IB) is gauche–trans.     

γ,δ‐ and δ,ε‐Unsaturated Aldehydes from γ‐ and δ‐Lactones in One Step. Preliminary Communication

A one‐step transformation of γ‐ and δ‐(spiro)lactones into γ,δ‐ and δ,ε‐unsaturated aldehydes with an excess of formic acid in the vapor phase over a supported manganese catalyst is described for the first time. The scope and limitations of this new reaction are shown with different lactones as substrate, and a mechanistic rationale is proposed.     

4‐Dimethyl­amino‐β‐nitro­styrene and 4‐dimethyl­amino‐β‐ethyl‐β‐nitro­styrene at 100 K

The structures of 4‐dimethyl­amino‐β‐nitro­styrene (DANS), C₁₀H₁₂N₂O₂, and 4‐dimethyl­amino‐β‐ethyl‐β‐nitro­styrene (DAENS), C₁₂H₁₆N₂O₂, have been solved at T = 100 K. The structure solution for DANS was complicated by the presence of a static disorder, characterized by a misorientation of 17% of the mol­ecules. The mol­ecule of DANS is almost planar, indicating significant conjugation, with a push–pull effect through the styrene skeleton extending up to the terminal substituents and enhancing the dipole moment. As a consequence of this conjugation, the hexa­gonal ring displays a quinoidal character; the lengths of the C—N [1.3595 (15) Å] and C—C [1.448 (2) Å] bonds adjacent to the benzene ring are shorter than single bonds. The mol­ecules are stacked in dimers with anti­parallel dipoles. In contrast, the mol­ecule of DAENS is not planar. The ethyl substituent pushes the nitro­propene group out of the benzene plane, with a torsion angle of −21.9 (3). Nevertheless, the mol­ecule remains conjugated, with a shortening of the same bonds as in DANS.     

Methyl 4‐O‐β‐l‐galactopyranosyl‐β‐d‐glucopyranoside (methyl β‐l‐lactoside)

Methyl β‐l ‐lactoside, C₁₃H₂₄O₁₁, (II), is described by glycosidic torsion angles ϕ (O5_Gal—C1_Gal—O4_Glc—C4_Glc) and ψ (C1_Gal—O1_Gal—C4_Glc—C5_Glc) of 93.89 (13) and −127.43 (13)°, respectively, where the ring atom numbering conforms to the convention in which C1 is the anomeric C atom and C6 is the exocyclic hydroxy­methyl (CH₂OH) C atom in both residues (Gal is galactose and Glc is glucose). Substitution of l ‐Gal for d ‐Gal in the biologically relevant disaccharide, methyl β‐lactoside [Stenutz, Shang & Serianni (1999). Acta Cryst. C 55 , 1719–1721], (I), significantly alters the glycosidic linkage inter­face. In the crystal structure of (I), one inter‐residue (intra­molecular) hydrogen bond is observed between atoms H3O_Glc and O5_Gal. In contrast, in the crystal structure of (II), inter‐residue hydrogen bonds are observed between atoms H6O_Glc and O5_Gal, H6O_Glc and O6_Gal, and H3O_Glc and O2_Gal, with H6O_Glc serving as a donor with two intra­molecular acceptors.     

5-雄烯-3β, 7α, 17β-三醇和5-雄烯-3β, 7β, 17β-三醇的合成

以5-雄烯二醇为原料,用微生物转化的方法合成了两个重要的神经甾体5-雄烯-3β, 7α, 17β-三醇和5-雄烯-3β, 7β, 17β-三醇。所用菌种总枝毛霉为我们自己筛选,并首次应用于5-雄烯-3β, 7α, 17β-三醇和5-雄烯-3β, 7β, 17β-三醇的合成中。     

Synthesis of 4‐(trihalomethyl)dipyrimidin‐2‐ylamines from β‐alkoxy‐α,β‐unsaturated trihalomethyl ketones

The synthesis of a novel series of twelve 4‐(trihalomethyl)dipyrimidin‐2‐ylamines, from the cyclo‐condensation reaction of 4‐(trichloromethyl)‐2‐guanidinopyrimidine, with β‐alkoxyvinyl trihalomethyl ketones, of general formula: X₃C‐C(O)‐C(R²)=C(R¹)‐OR, where: X = F, Cl; R = Me, Et, ‐(CH₂)₂‐, ‐(CH₂)₃‐; R¹ = H, Me; R² = H, Me, ‐(CH₂)₂‐, ‐(CH₂)₃‐, is reported. The reactions were carried out in acetonitrile under reflux for 16 hours, leading to the dipyrimidin‐2‐ylamines in 65‐90% yield. Depending on the substituents of the vinyl ketone, tetrahydropyrimidines or aromatic pyrimidine rings were obtained from the cyclization reaction. When X = Cl, elimination of the trichloromethyl group was observed during the cyclization step. The structure of 4‐(trihalomethyl)dipyrimidin‐2‐ylamines was studied in detail by ¹H‐, ¹³C‐ and 2D‐nmr spectroscopy.