An Unusual Dehydratase Acting on Glycerate and a Ketoreducatse Stereoselectively Reducing α‐Ketone in Polyketide Starter Unit Biosynthesis

Polyketide synthases (PKSs) usually employ a ketoreductase (KR) to catalyze the reduction of a β‐keto group, followed by a dehydratase (DH) that drives the dehydration to form a double bond between the α‐ and β‐carbon atoms. Herein, a DH*‐KR* involved in FR901464 biosynthesis was characterized: DH* acts on glyceryl‐S‐acyl carrier protein (ACP) to yield ACP‐linked pyruvate; subsequently KR* reduces α‐ketone that yields L ‐lactyl‐S‐ACP as starter unit for polyketide biosynthesis. Genetic and biochemical evidence was found to support a similar pathway that is involved in the biosynthesis of lankacidins. These results not only identified new PKS domains acting on different substrates, but also provided additional options for engineering the PKS starter pathway or biocatalysis.     

Two thiosemicarbazones derived from salicylaldehyde: very specific hydrogen‐bonding interactions of the N—H...S=C type

The molecular structures of two salicylaldehyde thiosemicarbazone derivatives, namely salicylaldehyde 4‐phenylthiosemicarbazone, C₁₄H₁₃N₃OS, (I), and 4‐methoxysalicylaldehyde 4‐phenylthiosemicarbazone, C₁₅H₁₅N₃O₂S, (II), both of potential pharmacological interest, are found in the keto (thione) tautomeric form. The first compound represents a second triclinic polymorph of composition β‐C₁₄H₁₃N₃OS. Although both polymorphs crystallize in the same space group (P), the α‐polymorph [Seena, Kurup & Suresh (2008). J. Chem. Crystallogr. 38 , 93–96] differs from the β form in its unit‐cell volume at 293 K. The molecules in the crystal structures of (I) and (II) are linked into centrosymmetric R²₂(8) dimers by hydrogen bonds of the N—H...S=C type. These dimers are connected through π–π stacking and T‐shaped C—H...π interactions into three‐dimensional networks.     

Divergent Mechanistic Routes for the Formation of gem‐Dimethyl Groups in the Biosynthesis of Complex Polyketides

The gem‐dimethyl groups in polyketide‐derived natural products add steric bulk and, accordingly, lend increased stability to medicinal compounds, however, our ability to rationally incorporate this functional group in modified natural products is limited. In order to characterize the mechanism of gem‐dimethyl group formation, with a goal toward engineering of novel compounds containing this moiety, the gem‐dimethyl group producing polyketide synthase (PKS) modules of yersiniabactin and epothilone were characterized using mass spectrometry. The work demonstrated, contrary to the canonical understanding of reaction order in PKSs, that methylation can precede condensation in gem‐dimethyl group producing PKS modules. Experiments showed that both PKSs are able to use dimethylmalonyl acyl carrier protein (ACP) as an extender unit. Interestingly, for epothilone module 8, use of dimethylmalonyl‐ACP appeared to be the sole route to form a gem‐dimethylated product, while the yersiniabactin PKS could methylate before or after ketosynthase condensation.     

3‐(4‐Cyano­phenyl)­pentane‐2,4‐dione and its copper(II) complex

The β‐diketone 3‐(4‐cyano­phenyl)­pentane‐2,4‐dione crystallizes as the enol tautomer 4‐(2‐hydroxy‐4‐oxopent‐2‐en‐3‐yl)­benzo­nitrile, C₁₂H₁₁NO₂, (I), with an intramolecular O—H⋯O hydrogen bond [O⋯O = 2.456 (2) Å]. Reaction of (I) with copper acetate monohydrate in the presence of triethyl­amine leads to the formation of the copper(II) complexbis­[3‐(4‐cyano­phenyl)­pentane‐2,4‐dionato‐κ²O,O]copper(II), [Cu(C₁₂H₁₀NO₂)₂], (II). In the structure of (II), the Cu atom is coordinated by four β‐diketonate O atoms in a slightly distorted square‐planar geometry, with Cu—O distances in the range 1.8946 (11)–1.9092 (11) Å. The nitrile moieties in (II) make it a candidate for reaction with other metal ions to produce supramolecular structures.     

An X‐ray crystallographic and density functional theory study of (3Z)‐4‐(5‐ethylsulfonyl‐2‐hydroxyanilino)pent‐3‐en‐2‐one and (3Z)‐4‐(5‐tert‐butyl‐2‐hydroxyanilino)pent‐3‐en‐2‐one

The Schiff base enaminones (3Z)‐4‐(5‐ethylsulfonyl‐2‐hydroxyanilino)pent‐3‐en‐2‐one, C₁₃H₁₇NO₄S, (I), and (3Z)‐4‐(5‐tert‐butyl‐2‐hydroxyanilino)pent‐3‐en‐2‐one, C₁₅H₂₁NO₂, (II), were studied by X‐ray crystallography and density functional theory (DFT). Although the keto tautomer of these compounds is dominant, the O=C—C=C—N bond lengths are consistent with some electron delocalization and partial enol character. Both (I) and (II) are nonplanar, with the amino–phenol group canted relative to the rest of the molecule; the twist about the N(enamine)—C(aryl) bond leads to dihedral angles of 40.5 (2) and −116.7 (1)° for (I) and (II), respectively. Compound (I) has a bifurcated intramolecular hydrogen bond between the N—H group and the flanking carbonyl and hydroxy O atoms, as well as an intermolecular hydrogen bond, leading to an infinite one‐dimensional hydrogen‐bonded chain. Compound (II) has one intramolecular hydrogen bond and one intermolecular C=O...H—O hydrogen bond, and consequently also forms a one‐dimensional hydrogen‐bonded chain. The DFT‐calculated structures [in vacuo, B3LYP/6‐311G(d,p) level] for the keto tautomers compare favourably with the X‐ray crystal structures of (I) and (II), confirming the dominance of the keto tautomer. The simulations indicate that the keto tautomers are 20.55 and 18.86 kJ mol⁻¹ lower in energy than the enol tautomers for (I) and (II), respectively.     

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.     

Atmospheric reactivity of ethylene catalyzed by β‐diketiminato Ni(II)/methylaluminoxane system

Atmospheric ethylene reactions were studied with backbone fluorinated β‐diketiminato Ni(II) complexes CH{C(CF₃)NAr}₂NiBr (1, Ar = 2,6‐Me₂C₆H₃, and 2 2,6‐ⁱPr₂C₆H₃) activated by methylaluminoxane (MAO). The catalytic systems exhibit the characteristics of catalyzing simultaneously polymerization and oligomerization of ethylene, indicating different active species involved in the reaction system. In an effort to investigate the alkylation species involved in the β‐diketiminato nickel (II)/MAO system, the reaction of 1 with methylaluminoxane were studied. With ¹⁹F{¹H NMR} spectra, two sets of new signals different from 1 were presented. Two alkylation products were proposed precursors of active species for producing oligomer and polymer of ethylene in the β‐diketiminato Ni(II)/MAO system. Copyright © 2014 John Wiley & Sons, Ltd.     

A Long‐Range Acting Dehydratase Domain as the Missing Link for C17‐Dehydration in Iso‐Migrastatin Biosynthesis

The dehydratase domains (DHs) of the iso‐migrastatin (iso‐MGS) polyketide synthase (PKS) were investigated by systematic inactivation of the DHs in module‐6, ‐9, ‐10 of MgsF (i.e., DH6, DH9, DH10) and module‐11 of MgsG (i.e., DH11) in vivo, followed by structural characterization of the metabolites accumulated by the mutants, and biochemical characterization of DH10 in vitro, using polyketide substrate mimics with varying chain lengths. These studies allowed us to assign the functions for all four DHs, identifying DH10 as the dedicated dehydratase that catalyzes the dehydration of the C17 hydroxy group during iso‐MGS biosynthesis. In contrast to canonical DHs that catalyze dehydration of the β‐hydroxy groups of the nascent polyketide intermediates, DH10 acts in a long‐range manner that is unprecedented for type I PKSs, a novel dehydration mechanism that could be exploited for polyketide structural diversity by combinatorial biosynthesis and synthetic biology.     

Heterogeneous copper‐catalyzed oxidative coupling of oxime acetates with sodium sulfinates: An efficient and practical synthesis of β‐keto sulfones

An efficient and practical route to β‐keto sulfones has been developed through heterogeneous oxidative coupling of oxime acetates with sodium sulfinates by using an MCM‐41‐supported Schiff base‐pyridine bidentate copper (II) complex [MCM‐41‐Sb,Py‐Cu (OAc)₂] as the catalyst and oxime acetates as an internal oxidant, followed by hydrolysis. The reaction generates a variety of β‐keto sulfones in good to excellent yields. This new heterogeneous copper (II) catalyst can be easily prepared via a simple procedure from readily available and inexpensive reagents and exhibits the same catalytic activity as Cu (OAc)₂. MCM‐41‐Sb,Py‐Cu (OAc)₂ is also easy to recover and is recyclable up to eight times with almost consistent activity.     

7‐Oxobi­cyclo­[2.2.1]­heptane‐1‐carboxylic acid and ()‐7‐oxobi­cyclo­[2.2.1]­hept‐5‐ene‐2‐endo‐carboxylic acid: hydrogen bonding in two norbornyl keto acids

Molecules of the title β‐keto acid, 7‐oxobi­cyclo­[2.2.1]­heptane‐1‐carboxylic acid, C₈H₁₀O₃, exhibit chirality due to the bridgehead carboxyl group, which is partially ordered and has a slightly asymmetric conformation. The mol­ecules form centrosymmetric hydrogen‐bonded carboxyl dimers [O?O 2.639 (2) Å]. The title alkenoic γ‐keto acid, ()‐7‐oxobi­cyclo­[2.2.1]­hept‐5‐ene‐2‐endo‐carboxylic acid, C₈H₈O₃, also forms typical centrosymmetric hydrogen‐bonded carboxyl dimers [O?O 2.660 (3) Å]. There is partial disorder of the carboxyl group in each compound.     

(1R,2R)‐2‐(4‐Methylenecyclohex‐2‐enyl)propyl (1R,4S)‐camphanate

Esterification of a single diastereomer of 2‐(4‐methylene­cyclohex‐2‐enyl)propanol, (II), with (1R,4S)‐(+)‐camphanic acid [(1R,4S)‐4,7,7‐trimethyl‐3‐oxo‐2‐oxabicyclo[2.2.1]heptane‐1‐carboxylic acid] leads to the crystalline title compound, C₂₀H₂₈O₄. The relative configuration of the camphanate was determined by X‐ray diffraction analysis. The outcome clarifies the relative and absolute stereochemistry of the naturally occurring bisabolane sesquiterpenes β‐turmerone and β‐sesquiphellandrene, since we have converted (II) into both natural products via a stereospecific route.     

Methyl β‐allolactoside [methyl β‐d‐galactopyranosyl‐(1→6)‐β‐d‐glucopyranoside] monohydrate

Methyl β‐allolactoside [methyl β‐d ‐galactopyranosyl‐(1→6)‐β‐d ‐glucopyranoside], (II), was crystallized from water as a monohydrate, C₁₃H₂₄O₁₁·H₂O. The βGalp and βGlcp residues in (II) assume distorted ⁴C₁ chair conformations, with the former more distorted than the latter. Linkage conformation is characterized by ϕ′ (C2_Gal—C1_Gal—O1_Gal—C6_Glc), ψ′ (C1_Gal—O1_Gal—C6_Glc—C5_Glc) and ω (C4_Glc—C5_Glc—C6_Glc—O1_Gal) torsion angles of 172.9 (2), −117.9 (3) and −176.2 (2)°, respectively. The ψ′ and ω values differ significantly from those found in the crystal structure of β‐gentiobiose, (III) [Rohrer et al. (1980). Acta Cryst. B 36 , 650–654]. Structural comparisons of (II) with related disaccharides bound to a mutant β‐galactosidase reveal significant differences in hydroxymethyl conformation and in the degree of ring distortion of the βGlcp residue. Structural comparisons of (II) with a DFT‐optimized structure, (II_C), suggest a link between hydrogen bonding, pyranosyl ring deformation and linkage conformation.     

Three novel benzothiazine‐fused triazoles as potential centrally acting muscle relaxants

The structures of the novel triazolobenzothiazines 2,4‐dihydro‐1H‐benzo[b][1,2,4]triazolo[4,3‐d][1,4]thiazin‐1‐one (IDPH‐791), C₉H₇N₃OS, (I), a potential muscle relaxant, its benzoyl derivative, 2‐(2‐oxo‐2‐phenylethyl)‐2,4‐dihydro‐1H‐benzo[b][1,2,4]triazolo[4,3‐d][1,4]thiazin‐1‐one, C₂₀H₁₇N₃O₄S, (II), and the β‐keto ester derivative, ethyl 3‐oxo‐2‐(1‐oxo‐2,4‐dihydro‐1H‐benzo[b][1,2,4]triazolo[4,3‐d][1,4]thiazin‐2‐yl)‐3‐phenylpropanoate, C₁₇H₁₃N₃O₂S, (III), are the first examples of benzothiazine‐fused triazoles in the crystallographic literature. The heterocyclic thiazine rings in all three structures adopt a distorted half‐chair conformation. Compound (III) exists in the trans‐β‐diketo form. Other than N—H...O hydrogen bonds in (I) forming dimers, no formal intermolecular hydrogen bonds are involved in the crystal packing of any of the three structures, which is dominated by C—H...O/N and π–π stacking interactions.     

5‐(2‐Chloro­phenyl­diazenyl)­salicyl­aldehyde and 4‐(2‐chloro­phenyl­diazenyl)‐2‐{[tris­(hydroxy­methyl)­methyl]­amino­methyl­ene}cyclo­hexa‐3,5‐dien‐1(2H)‐one

The mol­ecule of the former title compound, C₁₃H₉ClN₂O₂, (I), is nearly planar, with an intramolecular O⋯O hydrogen bond of 2.692 (2) Å. The latter title compound, C₁₇H₁₈ClN₃O₄, (II), exists in the keto–amine tautomeric form, with a strong intramolecular hydrogen bond of 2.640 (2) Å between the O and N atoms, the H atom being bonded to the N atom. The azo­benzene moieties of both mol­ecules have trans configurations, and the dihedral angle between the planes of the two aromatic rings is 4.1 (1)° in (I) and 9.9 (1)° in (II). The N—H⋯O hydrogen‐bonded rings are almost planar and coupled with the cyclo­hexa­diene rings in (II).     

Synthon preference in a hydrated β‐resorcylic acid structure and its cocrystal with thymine

Multicomponent crystals or cocrystals play a significant role in crystal engineering, the main objective of which is to understand the role of intermolecular interactions and to utilize such understanding in the design of novel crystal structures. Molecules possessing carboxylic acid and amide functional groups are good candidates for forming cocrystals. β‐Resorcylic acid monohydrate, C₇H₆O₄·H₂O, (I), crystallizes in the triclinic space group P with one β‐resorcylic acid molecule and one water molecule in the asymmetric unit. The cocrystal thymine–β‐resorcylic acid–water (1/1/1), C₅H₆N₂O₂·C₇H₆O₄·H₂O, (II), crystallizes in the orthorhombic space group Pca2₁, with one molecule each of thymine, β‐resorcylic acid and water in the asymmetric unit. All available donor and acceptor atoms in (I) and (II) are utilized for hydrogen bonding. The acid and amide functional groups are well known for the formation of self‐complementary acid–acid and amide–amide homosynthons. In (I), an acid–acid homosynthon is observed, while in (II), an amide–acid heterosynthon is present. In (I), the β‐resorcylic acid molecule exhibits the expected intramolecular S(6) motif between the hydroxy and carbonyl O atoms, and an intermolecular R₂²(8) dimer motif between the carboxylic acid groups; only the former motif is observed in (II). The water solvent molecule in (I) propagates the discrete dimers into two‐dimensional hydrogen‐bonded sheets. In (II), thymine and β‐resorcylic acid molecules do not form self‐complementary amide–amide and acid–acid homosynthons; instead, a thymine–β‐resorcylic acid heterosynthon is observed. With the help of the water molecule, this heterosynthon is aggregated into a three‐dimensional hydrogen‐bonded network. The absence of thymine base pairing in (II) might be linked to the availability of additional functional groups and the preference of the donor and acceptor hydrogen‐bond combinations.     

Conformations of diester triphenylphosphonium ylides with an ylidic ester or keto and ester ylidic groups

The structures of three related keto diester and diester ylides, namely diethyl 3‐oxo‐2‐(triphenylphosphoranylidene)glutarate, C₂₇H₂₇O₅P, (I), diethyl 3‐oxo‐2‐(triphenylphosphoranylidene)glutarate acetic acid monosolvate, C₂₇H₂₇O₅P·C₂H₄O₂, (II), and diethyl 2‐(triphenylphosphoranylidene)succinate, C₂₆H₂₇O₄P, (III), are presented. The syn‐keto anti‐ester conformations in the crystalline keto diesters are governed by electronic delocalization between the P—C and ylidic bonds and an acyl group, and by intra‐ and intermolecular interactions. There are also intramolecular attractive and repulsive interactions of different types (C—H...O and C—H...π) controlling the molecular conformations. The mono‐ylidic diester (III) has an anti‐ester conformation, while those for (I) and (II) are related to pyrolytic formation of acetylene derivatives. The terminal nonylidic ester group in (I) was disordered over two sets of almost equally populated positions.     

An Unusual Type II Polyketide Synthase System Involved in Cinnamoyl Lipid Biosynthesis

As a unique structural moiety in natural products, cinnamoyl lipids (CLs), are proposed to be assembled by unusual type II polyketide synthases (PKSs). Herein, we demonstrate that the assembly of the CL compounds youssoufenes is accomplished by a PKS system that uniquely harbors three phylogenetically different ketosynthase/chain length factor (KS/CLF) complexes (YsfB/C, YsfD/E, and YsfJ/K). Through in vivo gene inactivation and in vitro reconstitution, as well as an intracellular tagged carrier‐protein tracking (ITCT) strategy developed in this study, we successfully elucidated the isomerase‐dependent ACP‐tethered polyunsaturated chain elongation process. The three KS/CLFs were revealed to modularly assemble different parts of the youssoufene skeleton, during which benzene ring closure happens right after the formation of an ACP‐tethered C18 polyene. Of note, the ITCT strategy could significantly contribute to the elucidation of other carrier‐protein‐dependent biosynthetic machineries.     

Iterative Assembly of Two Separate Polyketide Chains by the Same Single‐Module Bacterial Polyketide Synthase in the Biosynthesis of HSAF

Antifungal HSAF (heat‐stable antifungal factor, dihydromaltophilin) is a polycyclic tetramate macrolactam from the biocontrol agent Lysobacter enzymogenes. Its biosynthetic gene cluster contains only a single‐module polyketide synthase–nonribosomal peptide synthetase (PKS‐NRPS), although two separate hexaketide chains are required to assemble the skeleton. To address the unusual biosynthetic mechanism, we expressed the biosynthetic genes in two “clean” strains of Streptomyces and showed the production of HSAF analogues and a polyene tetramate intermediate. We then expressed the PKS module in Escherichia coli and purified the enzyme. Upon incubation of the enzyme with acyl‐coenzyme A and reduced nicotinamide adenine dinucleotide phosphate (NADPH), a polyene was detected in the tryptic acyl carrier protein (ACP). Finally, we incubated the polyene–PKS with the NRPS module in the presence of ornithine and adenosine triphosphate (ATP), and we detected the same polyene tetramate as that in Streptomyces transformed with the PKS‐NRPS alone. Together, our results provide evidence for an unusual iterative biosynthetic mechanism for bacterial polyketide–peptide natural products.     

Characterization of an Anthracene Intermediate in Dynemicin Biosynthesis

Despite the identification of a β‐hydroxyhexaene produced by the enediyne polyketide synthases (PKSs), the post‐PKS biosynthetic steps to the individual members of this antitumor and antibiotic family remain largely unknown. The massive biosynthetic gene clusters (BGCs) that direct the formation of each product caution that many steps could be required. It was recently demonstrated that the enediyne PKS in the dynemicin A BGC from Micromonospora chersina gives rise to both the anthraquinone and enediyne halves of the molecule. We now present the first evidence for a mid‐pathway intermediate in dynemicin A biosynthesis, an iodoanthracene bearing a fused thiolactone, which was shown to be incorporated selectively into the final product. This unusual precursor reflects just how little is understood about these biosynthetic pathways, yet constrains the mechanisms that can act to achieve the key heterodimerization to the anthraquinone‐containing subclass of enediynes.     

Solid‐state conformations of linear depsipeptide amides with an alternating sequence of α,α‐disubstituted α‐amino acid and α‐hydroxy acid

Depsipeptides and cyclodepsipeptides are analogues of the corresponding peptides in which one or more amide groups are replaced by ester functions. Reports of crystal structures of linear depsipeptides are rare. The crystal structures and conformational analyses of four depsipeptides with an alternating sequence of an α,α‐disubstituted α‐amino acid and an α‐hydroxy acid are reported. The molecules in the linear hexadepsipeptide amide in (S)‐Pms‐Acp‐(S)‐Pms‐Acp‐(S)‐Pms‐Acp‐NMe₂ acetonitrile solvate, C₄₇H₅₈N₄O₉·C₂H₃N, ( 3b ), as well as in the related linear tetradepsipeptide amide (S)‐Pms‐Aib‐(S)‐Pms‐Aib‐NMe₂, C₂₈H₃₇N₃O₆, ( 5a ), the diastereoisomeric mixture (S,R)‐Pms‐Acp‐(R,S)‐Pms‐Acp‐NMe₂/(R,S)‐Pms‐Acp‐(R,S)‐Pms‐Acp‐NMe₂ (1:1), C₃₂H₄₁N₃O₆, ( 5b ), and (R,S)‐Mns‐Acp‐(S,R)‐Mns‐Acp‐NMe₂, C₃₀H₃₇N₃O₆, ( 5c ) (Pms is phenyllactic acid, Acp is 1‐aminocyclopentanecarboxylic acid and Mns is mandelic acid), generally adopt a β‐turn conformation in the solid state, which is stabilized by intramolecular N—H…O hydrogen bonds. Whereas β‐turns of type I (or I′) are formed in the cases of ( 3b ), ( 5a ) and ( 5b ), which contain phenyllactic acid, the torsion angles for ( 5c ), which incorporates mandelic acid, indicate a β‐turn in between type I and type III. Intermolecular N—H…O and O—H…O hydrogen bonds link the molecules of ( 3a ) and ( 5b ) into extended chains, and those of ( 5a ) and ( 5c ) into two‐dimensional networks.