Design of peptides with α,β‐de­hydro residues: pseudo‐tripeptide N‐benzyl­oxy­carbonyl–ΔLeu–l‐Ala–l‐Leu–OCH3

The title peptide N‐benzyl­oxy­carbonyl–ΔLeu–l ‐Ala–l ‐Leu–OCH₃ [methyl N‐(benzyl­oxy­carbonyl)‐α,β‐de­hydro­leucyl‐l ‐alanyl‐l ‐leucinate], C₂₄H₃₅N₃O₆, was synthesized in the solution phase. The peptide adopts a type II′β‐turn conformation which is stabilized by an intramolecular 4 1 N—H?O hydrogen bond. The crystal packing is stabilized by two intermolecular N—H?O hydrogen bonds.     

Di‐ and tripeptide segments of zervamicin II‐2: Z‐Thr(OBn)‐Aib‐N(Me)Ph and Z‐Val‐Aib‐Hyp(OBn)‐OMe

The title compounds, O‐benzyl‐N‐(benzyl­oxy­carbonyl)­threonyl‐2,N‐dimethyl­alanin­anilide, C₃₀H₃₅N₃O₅, and methyl (4R)‐4‐benzyl­oxy‐N‐(benzyl­oxy­carbonyl)­valyl‐2‐(methyl­alanyl)prolinate, C₃₀H₃₉N₃O₇, were obtained from the `azirine coupling' of the corresponding protected amino acids with 2,2,N‐trimethyl‐2H‐azirin‐3‐amine and methyl (4R)‐4‐(benzyl­oxy)‐N‐(2,2‐dimethyl‐2H‐azirin‐2‐yl)prolinate, respectively. The Aib unit in each mol­ecule has the greatest turn‐ or helix‐inducing effect on the mol­ecular conformation. Inter­molecular N—H⋯O inter­actions link the mol­ecules of the tripeptide into sheets and those of the dipeptide into extended chains.     

16‐(4‐Cyano­benzyl­idene)‐17‐oxo­androst‐5‐en‐3β‐ol

In the title compound, 4‐(3β‐hydroxy‐17‐oxoandrost‐5‐en‐16‐ylidenemethyl)benzonitrile, C₂₇H₃₁NO₂, rings A and C of the steroid nucleus are in chair conformations. The central six‐membered ring B is in an 8β,9α‐half‐chair conformation, while the five‐membered ring D adopts a 13β,14α‐half‐chair conformation. The cyano­benzyl­idene moiety has an E configuration with respect to the carbonyl group at position C17. The dihedral angle between the planes of the steroid nucleus and the cyano­benzyl­idene moiety is 22.61 (15)°. Intermolecular O—H⃛N hydrogen bonds formed between the hydroxyl group of the steroid and the N atom of the cyano­benzyl­idene moiety of symmetry‐related mol­ecules link the steroid mol­ecules into chains which run parallel to the b axis.     

N‐Z‐Pro–d‐Leu using synchrotron radiation data from a very small crystal

The crystal structure of the neuroactive artificial dipeptide N‐­benzyl­oxy­carbonylprolyl‐d ‐leucine, C₁₉H₂₆N₂O₅, was solved using synchrotron radiation data collected on a very small crystal (20 × 20 × 380 μm). The mol­ecules form hydrogen‐bonded 2₁ helices. The acid carbonyl group does not participate in strong hydrogen bonds. This is interpreted as a consequence of close‐packing requirements.     

The tetrapeptide Z‐Leu‐Aib‐Pro‐Val‐OBg monohydrate

The intramolecular hydrogen‐bonding pattern of Z‐Leu‐Aib‐Pro‐Val‐OBg monohydrate [(N‐benzhydryl­amino)­carbonyl­methyl N‐benzyl­oxy­carbonyl‐α‐amino­isobutyryl­prolyl­valinate monohydrate], C₄₃H₅₅N₅O₈·H₂O, is unusual for a tetrapeptide because, in addition to a 14 hydrogen bond, a second hydrogen bond of the type 15 is formed. This folding reflects the intramolecular hydrogen‐bonding pattern that this amino acid sequence adopts in the naturally occurring peptaibol alamethicin.     

Head‐to‐head dimers in the zwitterion of 1‐hydroxy‐1‐phosphono‐3‐(1‐piperidino)propylidene‐1‐phosphonate (PHPBP)

The title compound, C₈H₁₉NO₇P₂, is a member of the bis­phosphonate family of therapeutic compounds. PHPBP has inner‐salt character, consisting of a negatively charged PO₃ group and a positively charged N atom. The six‐membered piperidine ring adopts an almost‐perfect chair conformation. The hydroxyl group and the N atom have gauche and trans conformations in relation to the O—C—C—C—N backbone, respectively. Hydrogen bonding is the main contributor to the packing in the crystal, which consists of head‐to‐head dimers formed through phosphonyl–phosphonyl hydrogen bonds, while O—H⋯O and N—H⋯O interactions join the dimers into a plane parallel to crystallographic b and c axes.     

3,5‐Bis(4‐methoxy­benzyl­idene)‐1‐methyl‐4‐piperidone and 3,5‐bis(4‐methoxy­benzyl­idene)‐1‐methyl‐4‐oxopiperidinium chloride: potential biophotonic materials

In the title compound 3,5‐bis(4‐methoxy­benzyl­idene)‐1‐methyl‐4‐piperidone, C₂₂H₂₃NO₃, (I), the central heterocyclic ring adopts a flattened boat conformation, while in the related salt 3,5‐bis(4‐methoxy­benzyl­idene)‐1‐methyl‐4‐oxopiperidin­ium chloride, C₂₂H₂₄NO₃⁺·Cl⁻, (II), the ring exhibits a `sofa' conformation in which the N atom deviates from the planar fragment. The pendant benzene rings are twisted from the heterocyclic ring planes in both mol­ecules in the same direction, the range of dihedral angles between the ring planes being 24.5 (2)–32.7 (2)°. The dominant packing motif in (I) involves centrosymmetric dimers bound by weak intermolecular C—H⋯O hydrogen bonds. In (II), cations and anions are linked by strong N—H⋯Cl hydrogen bonds, while weak C—H⋯O and C—H⋯Cl hydrogen bonds link the cations and anions into a three‐dimensional framework.     

Head‐to‐head dimers in the zwitterion of 1‐hydroxy‐3‐(pyrrolidin‐1‐yl)pro­pyl­idene‐1,1‐bis­phospho­nic acid (EB 1053)

The title compound, 1‐hydroxy‐1‐phospho­no‐3‐(1‐pyr­rol­idin­io)­propyl­idene‐1‐phospho­nate, C₇H₁₇NO₇P₂, is a member of the bis­phospho­nate class of drugs. As a zwitterion, it possesses a negative charge on one of the PO₃ groups and a positive charge on the pyrrolidine N atom. A zwitterion makes a contact with a neighbouring ion through the hydroxyl O atom and two phospho­nyl O atoms, one each from two different PO₃ groups. Hydro­gen bonding involves O—H⋯O and N—H⋯O interactions; the former are involved in the formation of head‐to‐head dimers, while the latter join the dimers into a chain running along the crystallographic b axis.     

16‐[3‐Methoxy‐4‐(2‐piperidin‐1‐yl­ethoxy)­benzyl­idene]‐17‐oxoandrost‐5‐en‐3β‐yl acetate monohydrate

The title compound, C₃₆H₄₉NO₅·H₂O, has the outer two six‐membered rings of the steroid nucleus in chair conformations. The central ring B of the steroid nucleus is in an 8β,9α‐half‐chair conformation, while ring D of the steroid adopts a slightly distorted 13β,14α‐half‐chair conformation. The piperidine ring is in a chair conformation. The methoxy­benzyl­idene moiety has an E configuration with respect to the carbonyl group at position 17. Intermolecular O—H?O and O—H?N hydrogen bonds link the steroid and water mol­ecules into chains which run parallel to the b axis.     

A zwitterion of 1,5‐bis­(2‐hydroxy­benzamido)‐3‐aza­pentane: a two‐dimensional hydrogen‐bonding network involving dimers

The title compound, 2‐{N‐[2‐(2‐hydroxy­benzamido)ethyl­ammonio­ethyl]amino­carbon­yl}phenolate, C₁₈H₂₁N₃O₄, crystallizes in a zwitterionic form as a result of inter­molecular proton transfer and possesses a negatively charged phenolate group and a protonated amino group. The 2‐hydroxy­benzamide and 2‐(amino­carbonyl)­phenolate moieties attached to the two ends of the C—C—N—C—C backbone adopt a cis conformation in relation to this backbone. All N‐ and O‐bound H atoms are involved in hydrogen‐bond formation; the zwitterions are first linked into head‐to‐tail dimers, which are further organized into a two‐dimensional network parallel to the crystallographic bc plane.     

N‐(1‐Naphthyl­acetyl)­glycine phen­acyl ester and phen­acyl (1‐naphthyl­acetoxy)­acetate

The structures of the bichromophoric compounds N‐(1‐naphthyl­acetyl)­gly­cine phen­acyl ester, C₂₂H₁₉NO₄, (I), and its oxy­gen analogue, phen­acyl (1‐naphthyl­acetoxy)­acetate, C₂₂H₁₈O₅, (II), have been determined. The mol­ecules of (I) are held together by intermolecular N—H⋯O hydrogen bonds between the carbonyl and N—H groups, while compound (II) does not show any hydrogen bonding in the crystal.     

Ethyl 3,5‐dimethyl‐4‐phenyl‐1H‐pyrrole‐2‐carboxylate

In the title compound, C₁₅H₁₇NO₂, the ethoxy­carbonyl group is anti with respect to the pyrrole N atom. The angle between the planes of the phenyl and pyrrole rings is 48.26 (9)°. The mol­ecules are joined into dimeric units by a strong hydrogen bonds between pyrrole N—H groups and carbonyl O atoms. The geometry of the isolated mol­ecule was studied by ab initio quantum mechanical calculations, employing both molecular orbital Hartree–Fock (MO–HF) and density functional theory (DFT) methods. The minimum energy was achieved for a conformation where the angle between the planes of the phenyl and pyrrole rings is larger, and that between the ethoxy­carbonyl and pyrrole planes is smaller than in the solid‐state mol­ecule.     

Cyclo­hexyl­ammonium 2′‐hydroxy‐2‐biphenyl phosphonate

In the molecular structure of the title compound, C₆H₁₄N⁺·C₁₂H₁₀O₄P^?, three O atoms are bonded to phospho­rus. The oxy­gen connected to the bi­phenoxy residue is not involved in hydrogen bonding; of the other two, one oxy­gen is involved in intermolecular hydrogen bonding to an N—H group as well as the O—H group of the bi­phenoxy residue, while the second oxy­gen is involved in hydrogen bonding to two N—H groups.     

X‐ray investigations of sulfur‐containing fungicides. IV. 4′‐{[Benzoyl(4‐chlorophenylhydrazono)methyl]sulfonyl}acetanilide and 4′‐{[benzoyl(4‐methoxyphenylhydrazono)methyl]sulfonyl}acetanilide

The conformations of the two approximately isomorphous structures 4′‐{[benzoyl(4‐chloro­phenyl­hydrazono)­methyl]­sul­fonyl}acetanilide, C₂₂H₁₈ClN₃O₄S, and 4′‐{[benzoyl(4‐meth­oxy­phenyl­hydrazono)­methyl]­sulfonyl}acetanilide, C₂₃H₂₁N₃­O₅S, are stabilized by resonance‐assisted intramolecular hydrogen bonds linking the hydrazone moieties and sulfonyl groups. The stronger bond is observed in the former compound. The difference in electronic properties between the Cl atom and the methoxy group is too small to significantly alter the non‐bonding interactions of the sulfonyl and β‐­carbonyl groups.     

2‐{[Tris(hydroxymethyl)methyl]aminomethylene}cyclohexa‐3,5‐dien‐1(2H)‐one and its 6‐hydroxy and 6‐methoxy derivatives

The title compounds, 2‐{[tris­(hydroxy­methyl)­methyl]­amino­methyl­ene}cyclo­hexa‐3,5‐dien‐1(2H)‐one, C₁₁H₁₅NO₄, (I), 6‐hydroxy‐2‐{[tris­(hydroxy­methyl)­methyl]­amino­methyl­ene}­cyclo­hexa‐3,5‐dien‐1(2H)‐one, C₁₁H₁₅NO₅, (II), and 6‐methoxy‐2‐{[tris­(hydroxy­methyl)­methyl]­amino­methyl­ene}­cyclo­hexa‐3,5‐dien‐1(2H)‐one, C₁₂H₁₇NO₅, (III), adopt the keto–amine tautomeric form, with the formal hydroxy H atom located on the N atom, and the NH group and oxo O atom display a strong intramolecular N—H⋯O hydrogen bond. The N—H⋯O hydrogen‐bonded rings are almost planar and coupled with the cyclo­hexa­diene rings. The carbonyl O atoms accept two other H atoms from the alcohol groups of adjacent mol­ecules in (I), and one from the alcohol and one from the phenol group in (II), but from only one alcohol H atom in (III).     

A pseudo‐cage complex of silver(I) with tripodal tetraamine having benzyl end groups, {tris[2‐(benzylamino)ethyl]amine‐κ4N}silver(I) perchlorate

The synthesis and crystal structure of {tris­[2‐(benzyl­amino)­ethyl]­amine‐κ⁴N}silver(I) perchlorate, [Ag(C₂₇H₃₆N₄)]ClO₄ or [Ag(bz₃tren)]ClO₄ {bz₃tren is tris­[2‐(benzyl­amino)­ethyl]­amine or N,N′,N′′‐tri­benzyl­tris(2‐amino­ethyl)­amine} are reported. The Ag atom is coordinated to four N atoms of the tren unit and is located 0.604 (3) Å out of the trigonal plane described by the three secondary amine N atoms, away from the bridgehead N atom. Edge‐to‐face π–π interactions between the aromatic end groups, and weak interactions between Ag and arene, allow the formation of a pseudo‐cage complex.     

2‐Acetamido‐N‐benz­yl‐2‐(methoxy­amino)acetamides: functionalized amino acid anticonvulsants

In the crystal structure of 2‐acetamido‐N‐benz­yl‐2‐(methoxy­amino)acetamide (3L), C₁₂H₁₇N₃O₃, the 2‐acetyl­amino­acetamide moiety has a linearly extended conformation, with an inter­planar angle between the two amide groups of 157.3 (1)°. In 2‐acetamido‐N‐benz­yl‐2‐[meth­oxy(meth­yl)­amino]­acetamide (3N), C₁₃H₁₉N₃O₃, the planes of the two amide groups inter­sect at an angle of 126.4 (4)°, resulting in a chain that is slightly more bent. The replacement of the methoxy­amino H atom of 3L with a methyl group to form 3N and concomitant loss of hydrogen bonding results in some positional/thermal disorder in the meth­oxy­(methyl)­amino group. In both structures, in addition to classical N—H⋯O hydrogen bonds, there are also weak non‐standard C—H⋯O hydrogen bonds. The hydrogen bonds and packing inter­actions result in planar hydro­philic and hydro­phobic areas perpendicular to the c axis in 3L and parallel to the ab plane in the N‐meth­yl derivative. Stereochemical comparisons with phenytoin have identified two O atoms and a phenyl group as mol­ecular features likely to be responsible for the anticon­vulsant activities of these compounds.     

N,N′‐Dibenzyldithiooxamide

The title compound, alternatively known as N,N′‐di­benzyl­ethane­di­thioamide, C₁₆H₁₆N₂S₂, lies about an inversion centre and contains a planar trans‐di­thiooxamide fragment characterized by a strong intramolecular hydrogen bond between the S atom and the adjacent amide H atom in the solid state, with an S?N distance of 2.926 (1) Å. The aryl substituent is oriented orthogonal to the mean plane of the trans‐di­thiooxamide fragment due to steric hindrance and this effect is discussed.     

Self‐assembly of 2‐pivaloyl‐6‐chloro­pterin

In the title compound, N‐(6‐chloro‐4‐oxo‐3,4‐di­hydro­pteridin‐2‐yl)­‐2,2‐di­methyl­propan­amide, C₁₁H₁₂ClN₅O₂, the rings in the pterin moiety are planar. The amide carbonyl O atom is in syn‐periplanar conformation while the C—N—C—C propanamide linkage is antiperiplanar. The N—H?N and N—H?O intermolecular hydrogen bonds transform the mol­ecules into infinite chains.     

Ferrocene compounds. XXXIV. 1′‐(tert‐Butoxycarbonylamino)ferrocene‐1‐carboxylic acid

Heteroannularly substituted ferrocene derivatives can act as model systems for various hydrogen‐bonded assemblies of biomol­ecules formed, for instance, by means of O—H⋯O and N—H⋯O hydrogen bonding. The crystal structure analysis of 1′‐(tert‐butoxy­carbonyl­amino)­ferrocene‐1‐carbox­ylic acid, [Fe(C₁₀H₁₄NO₂)(C₆H₅O₂)] or (C₅H₄COOH)Fe(C₅­H₄NHCOOC(CH₃)₃, reveals two independent mol­ecules within the asymmetric unit, and these are joined into discrete dimers by two types of intermolecular hydrogen bonds, viz. O—H⋯O and N—H⋯O. The –COOH and –NHCOOR groups are archetypes for dimer formation via two eight‐membered rings. The O—H⋯O hydrogen bonds [2.656 (3) and 2.663 (3) Å] form a cyclic carboxylic acid dimer motif. Another eight‐membered ring is formed by N—H⋯O hydrogen bonds [2.827 (3) and 2.854 (3) Å] between the N—H group and an O atom of another carbamoyl moiety. The dimers are assembled in a herring‐bone fashion in the bc plane.