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Heinrich Vahrenkamp

Publications and source records attributed to Heinrich Vahrenkamp.

At least 19 recordsLinked to original sources

Modeling zinc enzyme inhibition with functional thiolate ligands.

The blocking of zinc enzymes by thiolate-containing inhibitors was modeled by treating TpPh,MeZn-OH with functional thiols. The latter were chosen such that they contain an additional donor function (COOH, COOR, NH2, NHR, OH) in a position favorable for chelation. Of them, mercapto carboxylic acid esters were incorporated as thiolates. The corresponding mercapto carboxylic acids, however, used only their carboxylate function for coordination. Various mercapto amines, mercapto alcohols, and mercaptophenol were exclusively converted to thiolate ligands. The two modes of inhibitor attachment, terminal or chelating, were observed equally frequently. As a rule, they occur as alternatives for similar ligands. In case of 2-mercaptophenol they coexist in the crystalline state and in solution. Hydrogen bonding, both intra- and intermolecular, seems to be a decisive factor determining the inhibitor attachments. Its persistence in solution is underlined by the observation that TpPh,MeZn-hydroxythiophenolates are methylated about 2 orders of magnitude slower than TpPh,MeZn-SPh itself.

Enzyme Inhibitors↗

Zn-OH2 and Zn-OH complexes with hydroborate-derived tripod ligands: a comprehensive study.

The complete array of those hydrotris(pyrazolyl/thioimidazolyl)borate ligands that were developed and used in the author's laboratories, with N3, N2S, NS2, and S3 donor sets, was scanned for their ability to form Zn-OH2 and Zn-OH complexes. The coordination motifs found were Zn-OH2, Zn-OH, Zn-OH-Zn, and Zn-O2H3-Zn. Of these, the well-established Zn-OH motif was complemented with novel species bearing N3, NS2, and S3 tripods. The Zn-OH2 motif was observed only with pyrazolylborate ligands and only in unusual situations with coordination numbers higher than 4 for zinc. The new Zn-OH-Zn motif was realized for three different pyrazolylborates, for one NS2 tripod, and for two S3 tripods. Finally, it was verified that the Zn-O2H3-Zn motif again occurs only with pyrazolylborate ligands. The new complexes were identified by a total of 11 structure determinations.

Borates↗

Thiolate alkylation in tripod zinc complexes: a comparative kinetic study.

The biologically relevant alkylations of the thiolate ligands in tripod zinc thiolates by methyl iodide were studied kinetically. Five tripod ligands of the pyrazolyl/thioimidazolyl borate type were employed, offering N3, N2S, NS2, and S3 donor sets. For each of them, the ethyl-, benzyl-, phenyl-, and p-nitrophenylthiolate zinc complexes were investigated, yielding a total of 20 second-order rate constants. The comparison of these rate constants shows three effects: (1) the electronic effect among the thiolates, i.e., the ethanethiolates react about 3 orders of magnitude faster than the p-nitrophenylthiolates; (2) the steric effect among the pyrazolylborates, i.e., the phenyl-substituted ones react about 2 orders of magnitude faster than the tert-butyl-substituted ones; and (3) the strong acceleration by the sulfur donors in the tripods, reaching 4 orders of magnitude between the reaction times of the (N3)Zn-SR and (S3)Zn-SR complexes.

Alkylation↗

Tris(thioimidazolyl)borate-zinc-thiolate complexes for the modeling of biological thiolate alkylations.

The S3Zn-SR coordination of thiolate-alkylating enzymes such as the Ada DNA repair protein was reproduced in tris(thioimidazolyl)borate-zinc-thiolate complexes Tti(R)Zn-SR'. Four different Tti(R) ligands and nine different thiolates were employed, yielding a total of 12 new complexes. In addition, one Tti(R)Zn-SH complex and two thiolate-bridged [Tti(R)-SEt-Tti(R)]+ complexes were obtained. A selection of six thiolate complexes was converted with methyl iodide to the corresponding methyl thioethers and Tti(R)Zn-I. According to a kinetic analysis these reactions are second-order processes, which implies that the alkylations are likely to occur at the zinc-bound thiolates. They are much faster than the alkylations of zinc thiolates with N3 or N2S tripod ligands. The most reactive thiolate, Tti(Xyl)Zn-SEt, reacts slowly with trimethyl phosphate in a nonpolar medium at room temperature, yielding methyl-ethyl-thioether and Tti(Xyl)Zn-OPO(OMe)2 which can be converted back to the thiolate complex with NaSEt. This is the closest reproduction of the Ada repair process so far.

Alkylation↗

Reactions of pyrazolylborate-zinc-hydroxide complexes related to beta-lactamase activity.

Simple beta-lactams and their hydrolysis products, the beta-amino acids, react with TpZn-OH under deprotonation. The latter become semibidentate carboxylate ligands with a NH...O hydrogen bond, and the former become N-bound beta-lactamide ligands. Likewise the antibiotic derivatives 6-aminopenicillanic acid and 7-aminocephalosporanic acid are incorporated as carboxylate ligands. beta-Lactams bearing nitrophenyl or acyl substituents at the nitrogen atoms are opened hydrolytically by TpZn-OH, and the resulting N-substituted beta-amino acids are attached to zinc by their carboxylate functions. Only with trifluoroacetyl as the N-substituent does the hydrolytic cleavage occur at the external amide bond, yielding the free beta-lactam and TpZn-trifluoroacetate. The kinetic investigation of the opening reactions has shown them to be of second order like all other TpZn-OH-induced hydrolytic cleavages, thereby supporting the four-center mechanism for the monozinc beta-lactamases.

Amino Acids↗

Zinc-thiolate complexes of the bis(pyrazolyl)(thioimidazolyl)hydroborate tripods for the modeling of thiolate alkylating enzymes.

The new tripod ligands bis(pyrazolyl)(3-tert-butyl-2-thioimidazol-1-yl)hydroborate (L(1)) and bis(pyrazolyl)(3-isopropyl-2-thioimidazol-1-yl)hydroborate (L(2)), together with zinc nitrate or zinc chloride and the corresponding thiolates, have yielded a total of 17 zinc-thiolate complexes. These comprise aliphatic as well as aromatic thiolates and a cysteine derivative. Structure determinations have confirmed the tetrahedral ZnN(2)S(2) coordination in the complexes. Upon reaction with methyl iodide, the species L(1).Zn-SR are slowly converted to L(1).Zn-I and the free thioethers CH(3)SR. A kinetic analysis has shown these alkylations to be about 1 order of magnitude slower than those of the tris(pyrazolyl)borate complexes Tp(Ph,Me)Zn-SR. Alkylations with trimethyl phosphate were found to proceed very slowly even in DMSO at 80 degrees C.

Alkylation↗

Zinc complex chemistry of N,N,O ligands providing a hydrophobic cavity.

Three new highly substituted bis(2-picolyl)(2-hydroxybenzyl)amine ligands were synthesized, and their biomimetic zinc complex chemistry was explored. They have tert-butyl substituents at the 3-and 5-positions of their phenyl rings, and they bear one phenyl group (HL2), two methyl groups (HL3), or two phenyl groups (HL4) at the 6-positions of their pyridyl rings. Their reactions with hydrated zinc perchlorate yield three distinctively different complex types. L2 forms a trigonal-bipyramidal aqua complex, and L3, a square-pyramidal aqua complex. The substituents on L4 leave no room for a water ligand, and the resulting zinc complex is trigonal-monopyramidal with a vacant coordination site. The water ligands on the L2Zn and L3Zn units can be replaced by anionic halide, thiocyanate, p-nitrophenolate, benzoate, and organophosphate as well as uncharged pyridine ligands. The L4Zn unit forms labile halide, p-nitrophenolate, and pyridine complexes. Triethylamine converts the aqua complexes to the labile hydroxides L2Zn-OH and L3Zn-OH, and in polar media [L3Zn-OH2]+ seems to be in equilibrium with L3Zn-OH. The hydroxides, but not the water complexes, effect the hydrolytic cleavage of tris(p-nitrophenyl) phosphate to bis(p-nitrophenyl) phosphate. The kinetic investigation of the cleavage reactions has shown them to be second-order reactions, thereby supporting the proposed four-center mechanism.

Journal Article↗

Bis(pyrazolyl)(thioimidazolyl)borate ligands: the missing member in the N3...S3 scorpionate series.

The anionic bis(pyrazolyl)(thioimidazolyl)borate ligands BpMt(R) with R = tert-butyl and isopropyl were obtained as their potassium salts by reacting potassium tris(pyrazolyl)borate with the corresponding thioimidazoles in the melt at 150 degrees C. They were applied to form some tetrahedral zinc complexes and identified by the crystal structures of (BpMt(t-Bu))ZnCl and (BpMt(i-Pr))Zn-SC(6)H(4)-p-Cl.

Journal Article↗

Pyrazolylborate-zinc alkoxide complexes. 3. Acid-base reactions.

The alkoxides TpPh,MeZn-OR (R = Me, Et, i-Pr) undergo acid-base reactions with all hydrogen compounds whose acidity is higher than that of the corresponding alcohol ROH. Thus, anion exchange occurs with the common acids acetic acid, acetohydroxamic acid, acetylacetone, phenol, and ethylmercaptan. Alkoxide exchange is observed using methanol, ethanol, and trifluoroethanol. With the NH acids cyanamide, trifluoroacetamide, and pyrazoles, the corresponding anions are attached to zinc, and likewise beta- and gamma-lactams, a thiazolidinedione, and the cyclic sulfimide saccharin are deprotonated. Of the CH acids acetonitrile forms the Tp*Zn-cyanomethanide. Acetone is deprotonated by the cyanomethanide complex and incorporated as the Tp*Zn-beta-ketoiminate.

Journal Article↗

Pyrazolylborate-zinc alkoxide complexes. 2. Solvolytic chemistry.

The methoxides TpPh,MeZn-OMe and TpCum,MeZn-OMe were tested for their reactivity toward substrates that are hydrolytically cleaved with Tp*Zn-OH complexes. They do not induce the cleavage of nonactivated esters, phosphoesters, lactones, or lactams. They cleave the P-O-P linkage of tetraalkylpyrophosphates, but not the C-O-C linkage of dialkyl pyrocarbonates. Transesterification of esters and phosphoesters occurs when they are activated as p-nitrophenolates. The most facile cleavage occurs for thiolate functions present in dithioesters, thiolactones, and trithiocarbonates. These findings indicate that, while the leaving group properties of the methoxide unit are essential, it is the strength of the resulting zinc-substrate bonds that decides upon the occurrence or nonoccurrence of the cleavage reactions.

Journal Article↗

Pyrazolylborate-zinc alkoxide complexes. 1. Basic properties, methylations, and heterocumulene insertions.

While a solution of TpPh,MeZn-OH in methanol contains only traces of TpPh,MeZn-OMe, according to the equilibrium constant K = 5.8 x 10(-4), the reactions of TpPh,MeZn-OH with the electronegative alcohols trifluoroethanol and hexafluoro-2-propanol easily yield TpPh,MeZn-OCH2CF3 and TpPh,MeZn-OCH(CF3)2. The extremely hydrolytically sensitive TpPh,MeZn-OR complexes, with R = Me, Et, i-Pr, and CH2CH2F, as well as TpCum,MeZn-OR, with R = Me and i-Pr, are accessible from the Tp*Zn-hydride complexes and the corresponding alcohol. Alkylations with methyl iodide have revealed the high nucleophilicity of TpPh,MeZn-OMe by conversion to dimethyl ether and TpPh,MeZn-I. This conversion occurs rapidly not only with pure TpPh,MeZn-OMe but also with TpPh,MeZn-OH (as such or in the presence of methanol) and with TpPh,MeZn-OCOOMe. A relation of the Tp*Zn-alkoxides to the function of the zinc enzyme alcoholdehydrogenase exists in the reaction of TpPh,MeZn-OCH(CH3)2 with aromatic aldehydes, which yields acetone and the corresponding benzyl oxides TpPh,MeZn-OH2Ar. The heterocumulenes carbon dioxide, carbon disulfide, isothiocyanates, and one isocyanate are inserted into the Zn-OR bonds, yielding one alkyl carbonate complex (TpPh,MeZn-OC(O)OMe), two xanthogenate complexes (TpPh,MeZn-SC(S)OR), three iminothiocarbonate complexes (TpPh,MeZn-SC(NR')OR), and one alkyl carbamate complex (TpPh,MeZn-NR-COOMe). All insertion reactions can be described by a common mechanism involving a four-center intermediate in which the most basic heteroatom of the heterocumulene is attached to zinc.

Journal Article↗

Pyrazolylborate-zinc-nucleobase-complexes, 3:(1) base pairing studies.

In solution, the pyrazolylborate-zinc-nucleobase complexes show self-association and base pairing with external nucleobases. The self-association was studied quantitatively for Tp(Cum,Me)Zn-hypoxanthinate and Tp(Cum,Me)Zn-thyminate; the dimerization constants K(D) are 63 +/- 8 and 0.2 +/- 0.1 M(-1), respectively. Of the external nucleobases, 9-ethyladenine forms stable base pairs with the thyminate, uracilate, and xanthinate complexes, 9-isobutylguanine only with the cytosinate complex, 1-methylthymine with the adeninate and diaminopurinate complexes, and 1-methyluracil with the diaminopurinate complex. The association constant for the base pair Tp(Cum,Me)Zn-thyminate:9-ethyladenine was determined by NMR methods as K = 66 +/- 10 M(-1). Structure determinations of the crystalline adducts have confirmed the base pairing for Tp(Cum,Me)Zn-thyminate:9-ethyladenine, Tp(Cum,Me)Zn-cytosinate:9-isobutylguanine, and Tp(Cum,Me)Zn-xanthinate:9-ethyladenine. Both Watson-Crick and Hoogsteen base pairs have been observed. In the solid state, extended base pairing leads to quartet and polymer arrangements.

Journal Article↗

Pyrazolylborate-zinc-nucleobase-complexes, 2:(1) preparations and structures of Tp(Cum,Me)Zn and Tp(Ph,Me)Zn complexes.

The interactions of the nine most significant nucleobases (thymine, uracil, dihydrouracil, cytosine, adenine, guanine, diaminopurine, xanthine, hypoxanthine, in their deprotonated forms) with zinc and with themselves in pyrazolylborate zinc complexes Tp(Cum,Me)Zn-base and Tp(Ph,Me)Zn-base are described. Except for guanine, the complexes Tp*Zn-base could be isolated in all cases. Structure determinations could be performed for seven of the eight product types. Except for dihydrouracil and xanthine, the zinc ion is attached to that nitrogen of the base which in nucleosides bears the sugar moiety. In the solid state, all zinc-bound nucleobases are involved in hydrogen bonding interactions. Except for xanthine, this includes homo base pairing across a crystallographic inversion center.

Adenine↗

Tripodal pseudopeptides with three histidine or cysteine donors: synthesis and zinc complexation.

Peptide coupling of benzene-1,3,5-carboxylic acid with 3 equiv of histidine ethyl ester or cysteine ethyl ester has yielded the tripodal pseudopeptide ligands THB and H(3)TCB. Likewise, the combination of tris(carboxyethyl)nitromethane with 3 equiv of cysteine ethyl ester gave the tripod H(3)TCM. With zinc salts, the pseudopeptides form the insoluble compounds (THB)(2)Zn(5)Cl(10), Zn(3)(TCB)(2), and Zn(3)(TCM)(2) which are likely to be coordination polymers. Solution studies of THB with potentiometric methods have identified the complex species [(THB)(2)Zn](2+), [(THB)Zn-OH(2)](2+), and [(THB)Zn-OH](+). The pK(a) of the zinc-bound water molecule is 6.2, making the (THB)Zn complex a viable model of carbonic anhydrase.

Cysteine↗

Alcohol and Aldehyde Adducts of Zinc Thiolates: Structural Modeling of Alcoholdehydrogenase.

Bis(pentafluorothiophenolato)zinc (1) and bis(2,4,6-triisopropylthiophenolato)zinc (2) can be combined with nitrogen-containing derivatives of benzyl alcohol and benzaldehyde to form (N,O-chelate) zinc thiolates. 2-Pyridylmethanol as well as 2-quinolylmethanol (HetMeOH) yield [(HetMeO)Zn(SR)](4) (3, 4) having a cyclo-Zn(4)(&mgr;-O)(4) backbone and only terminal SR. Likewise, thiolate 1 and 2-(dimethylamino)benzyl alcohol form zwitterionic [(dimethylammoniobenzylato)Zn(SR)(2)](2) (5) with bridging alkoxide and terminal thiolate. In contrast, 6-picolylmethanol (PicMeOH) and thiolate 1 result in [(PicMeOH)Zn(SC(6)F(5))(2)] (6) containing zinc in a tetrahedral ZnNS(2)O, environment. Simple aromatic aldehydes form polymeric complexes [(RCHO)Zn(SC(6)F(5))(2)] (7: R = p-tolyl, 8: R = mesityl) with a [Zn-S](infinity) backbone. Chelating aldehydes (CA) yield mononuclear complexes with tetrahedral ZnNS(2)O coordination [(CA)Zn(SC(6)F(5))(2)] (9, CA = pyridine-2-carbaldehyde; 10, CA = 6-methylpyridine-2-carbaldehyde; 11, CA = 6-methoxypyridine-2-carbaldehyde; 12, CA = quinoline-2-carbaldehyde; 13, CA = 2-(dimethylamino)benzaldehyde). In contrast, N-methylimidazole-2-carbaldehyde (ImA) is coordinated twice in tetrahedral [(ImA)(2)Zn(SC(6)F(5))(2)] (14) lacking any Zn-O interactions. Pyridine-2,6-dicarbaldehyde (PDA) forms trigonal bipyramidal [(PDA)Zn(SC(6)F(5))(2)] (15) with ZnNO(2)S(2) ligation. The structures of 3, 4, 6, 8, 10, 11, 13, and 14 were determined crystallographically, and the structures of 5 and 15 were deduced from those of the corresponding ZnBr(2) complexes. The ZnNS(2)O coordination pattern observed for the enzyme has been reproduced to a very good approximation. In complexes 6 and 10, which are almost superimposable, it is realized for both the corresponding alcohol and aldehyde.

Journal Article↗

Pyrazolylborate-Zinc Complexes of RNA Precursors and Analogues Thereof.

The Tp ligand tris(3-cumenyl-5-methylpyrazolyl)borate was found to stabilize zinc complexes of nucleobases, of their natural precursors, and of nucleoside and nucleotide derivatives. Dihydroorotic acid and orotic acid are bound as monodentate carboxylate ligands. Uracil is coordinated via its deprotonated N1; 6-methylthiouracil acts as a bidentate ligand via N1 and S. Analogously, xanthine is a monodentate ligand bound by its deprotonated N7, while 6-mercaptopurine seems to bind in a bidentate fashion via N7 and S. Spectroscopic evidence indicates coordination of uridine and 2',3'-O-isopropylideneuridine via their deprotonated N3, as well as of xanthosine via N7. The hydrolytic cleavage of 2',3'-O-isopropylideneuridine 5'-(bis(p-nitrophenyl) phosphate) by TpZn-OH is preceded by an attachment of one TpZn unit to the deprotonated uracil base, presumably via N3.

Journal Article↗

Small Molecule Chemistry of the Pyrazolylborate-Zinc Unit Tp(Cum,Me)Zn.

The synthesis of the highly encapsulating pyrazolylborate ligand hydrotris(3-p-cumenyl-5-methylpyrazolyl)borate (L = Tp(Cum,Me)) and of its zinc hydroxide complex L.Zn-OH (1) are described. 1 is converted by H(2)S into the hydrosulfide complex L.Zn-SH (2). Both 1 and 2 seem to be contaminated with traces of the isomeric species 1' and 2' containing L' with one 3-methyl-5-p-cumenyl substituent. Thermal condensations of 1' and 2 yield the molecular zinc oxide and sulfide complexes L'.Zn-O-Zn.L' (3') and L.Zn-S-Zn.L (4). The hydroxide complex 1 has been found to react readily with cumulated double-bonded species: CO(2) is incorporated in alcoholic solutions to form the alkylcarbonate complexes L.Zn-OCOOR (5). Similarly, CS(2) in ethanol forms the O-ethyl dithiocarbonate complex L.Zn-SC(S)OEt (6). SO(2) is converted to a bridging sulfito ligand in L.Zn-O-SO-O-Zn.L (7), and phenyl isothiocyanate is bound as a thiocarbamidato ligand in L.Zn-SC(O)NHPh (8). Complexes 1, 2, 2', 3', 4, 5, and 6 have been confirmed by structure determinations and complexes 7 and 8 by spectral data.

Journal Article↗