Home Biocatalytic Strategies towards [4++2] Cycloadditions

Biocatalytic Strategies towards [4++2] Cycloadditions

2019-12-06 09:02:23

Biocatalysis and synthetic organic chemistry play by the same physicochemical rules, but their strong suits are fundamentally different. A case in point are cycloaddition reactions: their wide use in synthetic organic chemistry contrasts with their scarcity in biological systems. When Diels and Alder first discovered synthetic [4+2] cycloadditions they proposed that these reactions may be responsible for the formation of natural products; this prediction was accurate, but enzymes performing cycloadditions remained elusive for many decades.

 

Remarkably, Diels-Alderases raised from antibodies in the laboratory preceded isolation of natural enzymes by several years. Although Diels–Alder reactions had been implicated in biosynthetic pathways since at least the 1970s, it took until the mid-1990s for the first observation of natural enzymatic activity catalysing a Diels–Alder reaction. In recent years, a“gold rush” for enzymatic cycloadditions has unveiled a number of these biosynthetic transformations. However, the natural reactions play a different role to those employed by synthetic chemists. While synthetic chemists often harness intermolecular cycloadditions as a retrosynthetic disconnection, the natural examples tend to happen intramolecularly and occur late in the biosynthetic pathway.

 

In this review, we will explore the catalytic mechanisms of natural and unnatural [4+2] cyclases and compare them to chemical strategies. Determining accurate mechanisms of enzyme catalysed cycloadditions has proved to be challenging. The atom connectivity of reactants and products can readily be used to qualify a reaction as a formal [4+2] cycloaddition, but considerable debate concerns the degree of synchronicity[5] which is often taken as a criterium for “true” Diels–Alder reactions. As intriguing and important as the mechanistic study of enzymatic cycloadditions is, knowing the synchronicity of bond-formation events is not a priority for biocatalytic applications. Hence, we will cover enzymes catalysing formal [4+2] cycloadditions whether or not the detailed mechanism is known.

 

This includes Diels–Alderases catalysing a concerted [4+2] cycloaddition and enzymes employing stepwise Michaelaldol mechanisms. We will consider [4+2] cyclases to be any enzyme catalysing a reaction in which reactants with four and two atoms are connected to form a cycle of six while undergoing a reduction in bond multiplicity. Compared to the excellent reviews of the past years covering pericyclases, here we also highlight the newest discoveries in plants and focus particularly on the catalytic devices of the natural enzymes, designer enzymes and small molecule catalysts.


2. How chemists accelerate [4+2] cycloadditions
Although chemists have often turned to nature for inspiration, small-molecules catalysing cycloadditions were synthesised long before biocatalysts for these reactions were designed or discovered. Chemical catalysis of Diels–Alder reactions, for example, with simple Lewis acids such as aluminum trichloride, can achieve rate accelerations of 105 fold; the same range as typical, moderately efficient enzyme catalysts. This spectacular effect powers asymmetric catalysts that accelerate and direct the Diels–Alder reaction into a single stereochemical outcome. The Lewis acid metal centre of these catalysts
provides the core catalytic effect, whilst sterically demanding ligands close off undesired routes by favouring specific orientations of the reactants. Electronically, cycloaddition catalysis has been explained by a narrowing of the energy gap between the frontier orbitals of the diene and, through binding of the Lewis acid, the more electron-depleted dienophile.

 

For biological cyclases to become relevant in industrial biocatalysis, they must be able to compete with enantioselective chemical catalysts. These chemical catalysts have been meticulously designed for high catalytic efficiency and enantioselectivity and thus provide a rigorous reference point for discussing their biological counterparts (Scheme 1). Corey’s C2 symmetric aluminum diamine 1 is illustrative of the chemo-catalytic approach.[19] Here, the aluminum metal centre is coordinated by the dienophile with the less hindered lone pair opposite the oxazolidinone moiety. p–p interactions likely govern the preference of the vinyl residue to point towards the phenyl group of the catalyst and the cyclopentadiene attacks with endo preference from the less shielded face. As a result, the cycloaddition product 2, an intermediate in the total synthesis of prostaglandin, is formed with 96% enantiomeric excess.

 

Conformational restriction of the dienophile is crucial for the success of enantioselective catalysts that use only monodentate coordination, such as the aluminum diamines. In Corey’s oxazaborolidine ligand complex 3, a weak interaction with the C-alpha hydrogen of the ketone ligand has been proposed to account for this restriction, furnishing excellent enantioselectivities up to 99% ee.[19] Evan’s cationic copper(II) bisoxazolines are noteworthy because copper(II) complexes are relevant for the construction of artificial metalloenzymes. Due to the bidentate coordination of the dienophile and the C2 symmetry at the distorted square-planar copper centre in complex 4, predictions of the transition state are straightforward, and it follows that facial selectivity of the dienophile is controlled by
the bulky tert-butyl groups.

 

For cycloadditions featuring hydrophobic reactants, for example, the Diels–Alder reaction of methylvinylketone and cyclopentadiene, solvent selection can be influential. In a polar solvent like water, greasy reactants will associate with each other, and this hydrophobic proximity effect can accelerate the Diels–Alder reaction by two to three orders of magnitude. To achieve rate accelerations, an enzyme in aqueous solution must therefore provide more than the hydrophobic effect in solvent alone. A more exotic catalytic device not directly available to enzymes are high pressures of several thousand atmospheres, which have been useful in mechanistic studies and total synthesis. High pressures drive formation of the, relative to the reactants, more compact Diels–Alder transition state.

 

Enantioselective catalysts often show high stereoselectivity like enzymes but compare poorly in terms of catalytic efficiency: reactions typically take days to reach completion. For copper bisoxazolinones, dissociation constants in the high millimolar range have been reported. Given the open and solvent exposed arrangement of substrates on the metal centre of a small molecule chiral catalyst, weak binding and a generally large substrate scope are unsurprising. Currently, although cyclases are not able to supplant small molecule catalysts, with further optimisation they may provide stronger binding and
higher catalytic efficiencies.

 

3. Metals for speed, protein for selectivity
Artificial metalloenzymes hold great promise as designer biocatalysts with bespoke binding pockets, superior selectivities to small molecule catalysts and, perhaps, additional catalytic groups for faster reaction rates. Several exquisite examples have been created in the laboratory. Metallo-cyclases require the anchoring of the catalytic metal complex inside a proteinaceous pocket whilst also accommodating the substrates in the correct orientation for selective catalysis. For instance, Reetz and co-workers have bound a Cu II-phthalocyanine complex to bovine serum albumin (BSA), a protein with a universal ten dency to accommodate hydrophobic molecules on its surface (Scheme 1 B). Upon protein addition, the high endo/exo selectivity of the catalyst (96:4) was maintained while the chiral
protein environment conferred a 93% enantiomeric excess.

 

The catalytic rate, however, dropped slightly compared to the free ligand. With 2 mol% catalyst loading of a 66 kDa protein, the protein exceeded the product mass by far, underlining the challenge to create designer biocatalysts with fast catalytic rates (i.e. kcat) and high turnover numbers (TON). With protein catalysts comes the promise of genetic fine tuning and metalloenzymes are no exception to this. Enzyme binding pockets enclose substrates with a shell of protein side-chains that can be mutated to a vast variety of shapes and decorated with charges and H-bonding donors and acceptors. Bos and colleagues installed a conjugation site for bromoacetamide ligands by introducing the mutation Met89Cys into the small, homodimeric Lactococcal multidrug resistance Regulator (LmrR) protein (Scheme 1 B).[30] By conjugating a phenanthroline ligand and adding copper, an enantioselective catalyst was created reaching a good enantiomeric excess of 97% (endo/exo=95:5). In this case, conjugation to
LmrR not only rendered the reaction enantioselective but also accelerated it, as indicated by a 4.7-fold increase in yield after three days reaction time. The active site was responsive to mutation which could perhaps be exploited by more comprehensive mutational screens.

 

Metallo-cyclases appear to provide the best of both worlds for catalyst design: catalysis is provided by the metal centre and selectivity by the protein. This separation of roles may ultimately make these systems easier to control and modify than natural cyclases, in which catalysis and selectivity are intimately coupled within the protein structure. The presence of a protein scaffold, amenable to mutation and directed evolution, makes these synthetic enzymes a promising prospect for industrial biocatalysis. Despite the abundance of natural enzymes with catalytic metal centres, and the utility of metals in
cycloaddition catalysis, natural [4+2] cyclases utilising metal catalysis have not been observed. Instead, enzymes using other catalytic strategies have been discovered.

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Catalog No.:AA01BBF1

CAS No.:1035211-86-9 MDL No.:MFCD24641488

MF:C11H18N2 MW:178.2740

89-55-4

(75-76% POLYDIMETHYLSILOXANE)-ETHYLENE COPOLYMER, 80-120 cSt

Catalog No.:AA008ZI4

CAS No.:1035218-85-9 MDL No.:

MF: MW:

89-55-4

2-Bromo-6,7-dihydrothiazolo[5,4-c]pyridin-4(5h)-one

Catalog No.:AA007GCP

CAS No.:1035219-96-5 MDL No.:MFCD14706758

MF:C6H5BrN2OS MW:233.0857

89-55-4

(S)-1-Boc-2-methyl-[1,4]diazepane

Catalog No.:AA007GCO

CAS No.:1035226-84-6 MDL No.:MFCD08437660

MF:C11H22N2O2 MW:214.3046

89-55-4

AZ505

Catalog No.:AA008TAV

CAS No.:1035227-43-0 MDL No.:MFCD28044083

MF:C29H38Cl2N4O4 MW:577.5424

89-55-4

Az505 ditrifluoroacetate

Catalog No.:AA008TAW

CAS No.:1035227-44-1 MDL No.:MFCD28137733

MF:C33H40Cl2F6N4O8 MW:805.5891

89-55-4

1-(4-(Benzyloxy)-2-hydroxy-3-nitrophenyl)ethanone

Catalog No.:AA009KML

CAS No.:1035229-31-2 MDL No.:MFCD20482501

MF:C15H13NO5 MW:287.2674

89-55-4

8-Acetyl-5-(benzyloxy)-2h-benzo[b][1,4]oxazin-3(4h)-one

Catalog No.:AA0097M5

CAS No.:1035229-32-3 MDL No.:MFCD21607217

MF:C17H15NO4 MW:297.3053

89-55-4

5-(Benzyloxy)-8-(2-chloroacetyl)-2h-benzo[b][1,4]oxazin-3(4h)-one

Catalog No.:AA009KMK

CAS No.:1035229-33-4 MDL No.:MFCD22575152

MF:C17H14ClNO4 MW:331.7504

89-55-4

2-(1-Methyl-1h-pyrazol-4-yl)-1,3-thiazole-5-carboxylic acid

Catalog No.:AA01AHJC

CAS No.:1035235-01-8 MDL No.:MFCD11208453

MF:C8H7N3O2S MW:209.2251

89-55-4

methyl 5-(2-cyanophenyl)-1H-pyrazole-3-carboxylate

Catalog No.:AA01A4NN

CAS No.:1035235-09-6 MDL No.:MFCD23701964

MF:C12H9N3O2 MW:227.2188

89-55-4

Methyl 4-(2-bromophenyl)-2,4-dioxobutanoate

Catalog No.:AA0095WQ

CAS No.:1035235-10-9 MDL No.:MFCD11188864

MF:C11H9BrO4 MW:285.0908

89-55-4

Methyl 5-(2-bromophenyl)-1h-pyrazole-3-carboxylate

Catalog No.:AA008SHF

CAS No.:1035235-11-0 MDL No.:MFCD12400790

MF:C11H9BrN2O2 MW:281.1054

89-55-4

2-BROMO-5-(DIMETHYLAMINO)BENZOIC ACID

Catalog No.:AA01C7HO

CAS No.:1035235-21-2 MDL No.:MFCD23726327

MF:C9H10BrNO2 MW:244.0852

89-55-4

2(1H)-Isoquinolinecarboxylic acid, 3,4-dihydro-5-(4,4,5,5-tetramethyl-1,3,2-dioxaborolan-2-yl)-, 1,1-dimethylethyl ester

Catalog No.:AA007XDS

CAS No.:1035235-26-7 MDL No.:MFCD11044677

MF:C20H30BNO4 MW:359.2675

89-55-4

tert-Butyl-4-bromoisoindoline-2-carboxylate

Catalog No.:AA007XBL

CAS No.:1035235-27-8 MDL No.:MFCD10700130

MF:C13H16BrNO2 MW:298.1756

89-55-4

N-BOC-isoindoline-4-boronic acid, pinacol ester

Catalog No.:AA00944H

CAS No.:1035235-28-9 MDL No.:MFCD16652360

MF:C19H28BNO4 MW:345.2409

89-55-4

4-Cyano-2-fluorophenylboronic acid, pinacol ester

Catalog No.:AA008SDK

CAS No.:1035235-29-0 MDL No.:MFCD09998162

MF:C13H15BFNO2 MW:247.0731

89-55-4

Ethyl 2-(4-fluorophenyl)-2-methylpropanoate

Catalog No.:AA00HA0J

CAS No.:1035261-07-4 MDL No.:MFCD16748922

MF:C12H15FO2 MW:210.2447

89-55-4

4-(3-Fluorophenyl)tetrahydro-2h-pyran-4-carbonitrile

Catalog No.:AA00HA0K

CAS No.:1035261-79-0 MDL No.:MFCD10694448

MF:C12H12FNO MW:205.2282

89-55-4

4-(3-(Trifluoromethyl)phenyl)tetrahydro-2H-pyran-4-carboxylic acid

Catalog No.:AA019WY5

CAS No.:1035261-84-7 MDL No.:MFCD10690199

MF:C13H13F3O3 MW:274.2357

89-55-4

2-(3,4-Difluorophenyl)-2-methylpropanenitrile

Catalog No.:AA0085KG

CAS No.:1035262-16-8 MDL No.:MFCD11036569

MF:C10H9F2N MW:181.1820

89-55-4

2-(3-chloro-2-fluorophenyl)-2-methylpropanoic acid

Catalog No.:AA01ACYL

CAS No.:1035262-79-3 MDL No.:MFCD11036905

MF:C10H10ClFO2 MW:216.6366

89-55-4

(4-Chloro-3-fluorophenyl)acetic acid methyl ester

Catalog No.:AA0093NU

CAS No.:1035262-89-5 MDL No.:MFCD11110082

MF:C9H8ClFO2 MW:202.6100

89-55-4

3-Cyano-5-methoxyphenylboronic acid, pinacol ester

Catalog No.:AA0090CB

CAS No.:1035266-33-1 MDL No.:MFCD11855976

MF:C14H18BNO3 MW:259.1086

89-55-4

Azd4547

Catalog No.:AA008TAZ

CAS No.:1035270-39-3 MDL No.:MFCD22580423

MF:C26H33N5O3 MW:463.5719

89-55-4

3-[3-(2-Methoxyethoxy)phenyl]propanoic acid

Catalog No.:AA01BCPB

CAS No.:1035271-23-8 MDL No.:MFCD28012294

MF:C12H16O4 MW:224.2530

89-55-4

3-Propylbenzaldehyde

Catalog No.:AA00987I

CAS No.:103528-31-0 MDL No.:MFCD18824427

MF:C10H12O MW:148.2017

89-55-4

(3-methoxy-2-methylidene-3-oxopropyl)phosphonic acid

Catalog No.:AA01C4PA

CAS No.:103528-51-4 MDL No.:MFCD23131401

MF:C5H9O5P MW:180.0957

89-55-4

1,2-Epoxy-5-hexene

Catalog No.:AA003DC7

CAS No.:10353-53-4 MDL No.:MFCD00010051

MF:C6H10O MW:98.1430

89-55-4

Cellobiosyl fluoride

Catalog No.:AA01EAX8

CAS No.:103531-01-7 MDL No.:MFCD31916316

MF:C11H19FO11 MW:346.2604

89-55-4

5-{[(tert-butoxy)carbonyl]amino}bicyclo[3.1.1]heptane-1-carboxylic acid

Catalog No.:AA01EKCE

CAS No.:1035325-28-0 MDL No.:MFCD13806407

MF:C13H21NO4 MW:255.3101

89-55-4

1-(tert-Butoxycarbonyl)-3-hydroxyazetidine-3-carboxylic acid

Catalog No.:AA009920

CAS No.:1035351-06-4 MDL No.:MFCD24465599

MF:C9H15NO5 MW:217.2191

89-55-4

tert-Butyl N-[(3-hydroxyazetidin-3-yl)methyl]carbamate

Catalog No.:AA00HA0P

CAS No.:1035351-07-5 MDL No.:MFCD24467501

MF:C9H18N2O3 MW:202.2508

89-55-4

(3R,3Ar,6r,6ar)-3,6-bis(allyloxy)hexahydrofuro[3,2-b]furan

Catalog No.:AA0096T1

CAS No.:103536-97-6 MDL No.:MFCD30342469

MF:C12H18O4 MW:226.2689

89-55-4

3-Aminocyclobutanone hydrochloride

Catalog No.:AA007XBF

CAS No.:1035374-20-9 MDL No.:MFCD12923220

MF:C4H8ClNO MW:121.5654

89-55-4

4-Bromo-6-chlorobenzoimidazol-2-one

Catalog No.:AA007GCC

CAS No.:1035390-48-7 MDL No.:MFCD22123612

MF:C7H4BrClN2O MW:247.4765

89-55-4

Dibenzosuberenol

Catalog No.:AA003P8T

CAS No.:10354-00-4 MDL No.:MFCD00003586

MF:C15H12O MW:208.2552

89-55-4

N-Phenylpicolinamide

Catalog No.:AA003A1C

CAS No.:10354-53-7 MDL No.:MFCD00511984

MF:C12H10N2O MW:198.2206

89-55-4

1,4-DIMETHYLPIPERIDIN-4-OL

Catalog No.:AA008ROK

CAS No.:10354-61-7 MDL No.:MFCD00101728

MF:C7H15NO MW:129.2001

89-55-4

(3E)-4-(dimethylamino)-1,1-diphenylbut-3-en-2-one

Catalog No.:AA00INHB

CAS No.:103541-08-8 MDL No.:MFCD02089618

MF:C18H19NO MW:265.3496

89-55-4

methyl 2-(2-amino-4,5-dihydro-1,3-thiazol-4-yl)acetate

Catalog No.:AA01BAHS

CAS No.:103541-12-4 MDL No.:MFCD02656566

MF:C6H10N2O2S MW:174.2208

89-55-4

Boc-val-chloromethylketone

Catalog No.:AA008UET

CAS No.:103542-47-8 MDL No.:MFCD11113165

MF:C11H20ClNO3 MW:249.7344

89-55-4

ALENDRONIC-D6 ACID

Catalog No.:AA008XLM

CAS No.:1035437-39-8 MDL No.:MFCD08063600

MF:C4H7D6NO7P2 MW:255.1330

89-55-4

Risedronic Acid-d4 (Major)

Catalog No.:AA01CCCG

CAS No.:1035438-80-2 MDL No.:

MF:C7H7D4NO7P2 MW:287.1369

89-55-4

3-benzyl-5H,6H,7H,8H-[1,2,4]triazolo[4,3-a]pyrazine

Catalog No.:AA01AKUK

CAS No.:1035454-21-7 MDL No.:MFCD11856751

MF:C12H14N4 MW:214.2664

89-55-4

rac-(4R,5S)-5-(aminomethyl)-N-cyclopropyl-1,3-dioxolane-4-carboxamide, trans

Catalog No.:AA01EJO5

CAS No.:1035456-32-6 MDL No.:MFCD31559789

MF:C8H14N2O3 MW:186.2084

89-55-4

Quinoline-4-boronic acid pinacol ester

Catalog No.:AA003LXY

CAS No.:1035458-54-8 MDL No.:MFCD05155221

MF:C15H18BNO2 MW:255.1199

89-55-4

tert-butyl N-[2-(1H-indol-3-yl)ethyl]carbamate

Catalog No.:AA0085JY

CAS No.:103549-24-2 MDL No.:MFCD00716928

MF:C15H20N2O2 MW:260.3315

89-55-4

4-(4-Chlorophenoxy)phenylboronic acid

Catalog No.:AA00HA0Q

CAS No.:1035491-05-4 MDL No.:MFCD13182407

MF:C12H10BClO3 MW:248.4700

89-55-4

1-Methyl-3-(methylsulfonyl)benzene

Catalog No.:AA007XB3

CAS No.:10355-06-3 MDL No.:MFCD03789191

MF:C8H10O2S MW:170.2288

89-55-4

4-Nitro-p-terphenyl

Catalog No.:AA003LTT

CAS No.:10355-53-0 MDL No.:MFCD00149860

MF:C18H13NO2 MW:275.3013

89-55-4

2-Azetidinemethanamine

Catalog No.:AA007XB2

CAS No.:103550-76-1 MDL No.:MFCD06658334

MF:C4H10N2 MW:86.1356

89-55-4

methyl 2-amino-4-methylpent-4-enoate

Catalog No.:AA01BE6X

CAS No.:103550-87-4 MDL No.:MFCD19661114

MF:C7H13NO2 MW:143.1836

89-55-4

TAK-733

Catalog No.:AA008TH1

CAS No.:1035555-63-5 MDL No.:MFCD24386349

MF:C17H15F2IN4O4 MW:504.2267

89-55-4

A1-Phytoprostane-I Exclusive

Catalog No.:AA0097C9

CAS No.:1035557-09-5 MDL No.:

MF:C18H28O4 MW:308.4125

89-55-4

1-Bromo-3-(4-chlorophenyl)propan-2-one

Catalog No.:AA0094EI

CAS No.:103557-35-3 MDL No.:MFCD11847556

MF:C9H8BrClO MW:247.5162

89-55-4

Ethyl 4-(4-Fluorophenyl)-6-isopropyl-2-(N-methylsulfonamido)pyrimidine-5-carboxylate

Catalog No.:AA007GBY

CAS No.:1035595-71-1 MDL No.:MFCD09840588

MF:C17H20FN3O4S MW:381.4218

89-55-4

4-Amino-5-fluoro-1-((2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl)pyrimidin-2(1H)-one

Catalog No.:AA0085JN

CAS No.:10356-76-0 MDL No.:MFCD00077348

MF:C9H12FN3O4 MW:245.2077

89-55-4

4-ONE

Catalog No.:AA008RB5

CAS No.:103560-62-9 MDL No.:MFCD08062226

MF:C9H14O2 MW:154.2063

89-55-4

9-Phenyl-2,7-bis(4,4,5,5-tetramethyl-1,3,2-dioxaborolan-2-yl)-9H-carbazole

Catalog No.:AA00IMHA

CAS No.:1035631-57-2 MDL No.:MFCD31618151

MF:C30H35B2NO4 MW:495.2252

89-55-4

N-[4-[(3-Chloro-4-fluorophenyl)amino]-7-methoxy-6-quinazolinyl]-2-propenamide

Catalog No.:AA01ENHW

CAS No.:1035638-91-5 MDL No.:MFCD30182370

MF:C18H14ClFN4O2 MW:372.7808

89-55-4

4-[(3-methoxyphenyl)amino]butanoic acid

Catalog No.:AA01AJ3K

CAS No.:103565-46-4 MDL No.:MFCD09806780

MF:C11H15NO3 MW:209.2417

89-55-4

3-Fluoro-3'-(trifluoromethoxy)-[1,1'-biphenyl]-4-amine

Catalog No.:AA01B5C9

CAS No.:1035689-62-3 MDL No.:MFCD17406621

MF:C13H9F4NO MW:271.2103

89-55-4

1-bromo-3-cyclopropoxybenzene

Catalog No.:AA0039W8

CAS No.:1035690-22-2 MDL No.:MFCD17000487

MF:C9H9BrO MW:213.0712

89-55-4

3-Cyclopropoxyphenylboronic acid pinacol ester

Catalog No.:AA0093H0

CAS No.:1035690-24-4 MDL No.:MFCD16994464

MF:C15H21BO3 MW:260.1364