[N,N??-bis-(mercaptoethyl)-1,5-diazacyclooctanato]NiII, Ni-1, is known to undergo metallation reactions with numerous metals. [N,N??-bis-(mercaptoethyl)-1,5-diazacycloheptanato]NiII, (bme-dach)Ni or Ni-1??, differs from Ni-1 by one less carbon in its diazacycle backbone ring producing subtle differences in N2S2Ni geometry. Metallation of Ni-1?? with PdCl2, Pd(NO3)2, and NiBr2 produced three structural forms: Ni2Pd basket, Ni4Pd2 C4-paddlewheel, and Ni3 slant chair. In attempts to provide a rationale for the heterogeneity in the active site of Acetyl coA Synthase, metal ion capture studies of Ni-1 in methanol found a qualitative ranking of metal ion preference: Zn2+ < Ni2+ < Cu+. Formation constants for metal ion capture of Ni-1?? in water were determined for Pb2+, Ni2+, Zn2+, Cu+, and Ag+. A quantitative estimate places copper some 15 orders of magnitude above nickel or zinc in binding affinity. Sulfur dioxide uptake by Ni-1?? is characterized by significant color change, improved adduct solubility, and reversible binding of two equivalents of SO2. These combined properties establish Ni-1?? as a suitable model for gas uptake at nickel thiolate sites and as a possibly useful chemical sensor for this poisonous gas. Comparisons of molecular structures, ν(SO) stretching frequencies, and thermal gravimetric analyses are made to reported adducts including the diazacyclooctane derivative, Ni-1·2SO2. Visual SO2 detection limits of Ni-1 and Ni-1?? are established at 25 ppm and 100 ppm, respectively. Structural studies of products resulting from reaction at the nucleophilic S-sites of (bme-dach)Ni and [(bme-dach)Zn]2 included acetyl chloride and sodium iodoacetate as electrophiles are shown. The acetyl group is a natural electrophile important to the citric acid cycle. Acetylation of (bme-dach)Ni produces a five coordinate, paramagnetic species. Iodoacetate is a cysteine modification agent known to inhibit enzymatic activity. The reaction of (bme-dach)Ni and sodium iodoacetate yields a blue, six coordinate nickel complex in a N2S2O2 donor environment. The bismercaptodiazacycloheptane ligand binds lead(II) forming an unprecedented structural form of N2S2M dimers, in which Pb2+ is largely bound to sulfur in a highly distorted trigonal geometry. Its unusual structure is described in comparison to other derivatives of the bme-daco ligand. The synthesis and structural characterization of square pyramidal (bme-dach)GaCl are also given and compared to the analogous (bme-daco)GaCl.

Electronic and steric parameters for square planar NiN2S2 complexes as bidentate, S-donor ligands have been established. According to the (CO) stretching frequencies and associated computed Cotton-Kraihanzel force constants of (NiN2S2)W(CO)4 adducts, a ranking of donor abilities and a comparison with classical bidentate ligands are as follows: Ni(ema)= > { [NiN2S2]0 } > bipy phen > Ph2PCH2CH2PPh2 > Ph2PCH2PPh2. In addition, we have demonstrated that the NiN2S2 ligands are hemilabile as evidenced from CO addition to (NiN2S2)W(CO)4, which is in equilibrium with the resulting (NiN2S2)W(CO)5 species (Keq = 2.8 M-1, G = -1.4 kJ/mole at 50C). Complete NiN2S2 ligand displacement by CO-cleavage of the remaining W-S bond to form W(CO)6 was not observed, indicating that the remaining W-S bond is considerably strengthened upon ring-opening. Several new cluster compounds based on the NiN2S2 ligands bound to CuI, RhI, PdII and W0 are reported. Structural analysis of (NiN2S2)MLn complexes show a unique structural feature defined by the dihedral angle formed by the intersection of NiN2S2/WS2C2 planes; placing the NiN2S2 ligand in closer proximity to one side of the reactive metal center. This unique orientational feature of the NiN2S2 ligands in the series of bimetallic compounds contrasts with classical diphosphine or diimine ligands. The "hinge angle" ranges in value from 136 as in the (Ni-1*)W(CO)4 to 101 in the (Ni-1)Pd(CH3)(Cl) complexes. The rigidity of the SR hinge of the nickeldithiolate ligands suggests that they might be suitable for stereochemical and regioselective substrate addition to catalytically active metals such as RhI and PdII.. The structural as well as functional similarities of the acetyl CoA synthase enzyme (ACS) and a palladium-metal based industrial type catalyst led to the preparation of a [(Ni-1)Pd(CH3)]+ bimetallic complex. This complex facilitates CO and ethylene copolymerization to produce polyketone similar to conventional (diphosphine)Pd(X)2 catalysts. However, the diphosphine ligands produce more efficient catalysts as the electron-rich character of the NiN2S2 ligand favors the resting state of the catalyst, [(Ni-1)Pd(C(O)CH3)(CO)]+, over the reactive form (Ni-1)Pd(C(O)CH3)(2-C2H4)]+. An exploratory investigation with the Ni-Pd heterobimetallic showed that this complex also facilitated the C-S coupling reaction to form a thioester similar to the ACS enzyme.

[N,N??-bis-(mercaptoethyl)-1,5-diazacyclooctanato]NiII, Ni-1, is known to undergo metallation reactions with numerous metals. [N,N??-bis-(mercaptoethyl)-1,5-diazacycloheptanato]NiII, (bme-dach)Ni or Ni-1??, differs from Ni-1 by one less carbon in its diazacycle backbone ring producing subtle differences in N2S2Ni geometry. Metallation of Ni-1?? with PdCl2, Pd(NO3)2, and NiBr2 produced three structural forms: Ni2Pd basket, Ni4Pd2 C4-paddlewheel, and Ni3 slant chair. In attempts to provide a rationale for the heterogeneity in the active site of Acetyl coA Synthase, metal ion capture studies of Ni-1 in methanol found a qualitative ranking of metal ion preference: Zn2+ < Ni2+ < Cu+. Formation constants for metal ion capture of Ni-1?? in water were determined for Pb2+, Ni2+, Zn2+, Cu+, and Ag+. A quantitative estimate places copper some 15 orders of magnitude above nickel or zinc in binding affinity. Sulfur dioxide uptake by Ni-1?? is characterized by significant color change, improved adduct solubility, and reversible binding of two equivalents of SO2. These combined properties establish Ni-1?? as a suitable model for gas uptake at nickel thiolate sites and as a possibly useful chemical sensor for this poisonous gas. Comparisons of molecular structures,&#61472; &#957;(SO) stretching frequencies, and thermal gravimetric analyses are made to reported adducts including the diazacyclooctane derivative, Ni-1&#903;2SO2. Visual SO2 detection limits of Ni-1 and Ni-1?? are established at 25 ppm and 100 ppm, respectively. Structural studies of products resulting from reaction at the nucleophilic S-sites of (bme-dach)Ni and [(bme-dach)Zn]2 included acetyl chloride and sodium iodoacetate as electrophiles are shown. The acetyl group is a natural electrophile important to the citric acid cycle. Acetylation of (bme-dach)Ni produces a five coordinate, paramagnetic species. Iodoacetate is a cysteine modification agent known to inhibit enzymatic activity. The reaction of (bme-dach)Ni and sodium iodoacetate yields a blue, six coordinate nickel complex in a N2S2O2 donor environment. The bismercaptodiazacycloheptane ligand binds lead(II) forming an unprecedented structural form of N2S2M dimers, in which Pb2+ is largely bound to sulfur in a highly distorted trigonal geometry. Its unusual structure is described in comparison to other derivatives of the bme-daco ligand. The synthesis and structural characterization of square pyramidal (bme-dach)GaCl are also given and compared to the analogous (bme-daco)GaCl.

The A-cluster of acetyl-CoA synthase (ACS) catalyzes the formation of acetyl- CoA from CO, coenzyme-A, and a methyl group donated by a corrinoid iron-sulfur protein. Recent crystal structures have exhibited three different metals, Zn, Cu, and Ni, in the proximal site, which bridges a square-planar nickel site and a [Fe4S4] cubane. Contradicting reports supported both the nickel and copper containing forms as representing active enzyme. The results presented here indicate that copper is not necessary or sufficient for catalysis and that copper addition to ACS is deleterious. Several proposed mechanisms exist for the synthesis of acetyl-CoA, the two most prominent are the ‘paramagnetic’ and ‘diamagnetic’ mechanisms. The ‘diamagnetic’ mechanism proposes a two electron activation that precedes methylation to produce an EPR silent Ni2+-CH3 species. This then reacts with CO and coenzyme-A to form acetyl- CoA and regenerate the starting species. The ‘paramagnetic’ mechanism assumes a one electron activation prior to the methylation of the paramagnetic Ni1+-CO state to form an unstable Ni3+-acetyl species. This is immediately reduced by an electron shuttle. Results are presented here that no shuttle or external redox mediator is necessary for catalysis. This supports the ‘diamagnetic’ mechanism, specifically that a two-electron reductive activation is necessary and that the Ni1+-CO species is not an intermediate. The two-electron reductive activation required by the ‘diamagnetic’ mechanism results in an unknown electronic state. Two proposals have been made to describe this form of the A-cluster. The first hypothesis from Brunold et al involves a one-electron reduction of the [Fe4S4]2+ cube and a one-electron reduction of the Nip 2+. This should result in a spin-coupled state that is S = integer. The Ni0 hypothesis requires both electrons to localize on the Nip 2+ forming a zero-valent proximal nickel. Mössbauer spectroscopy has been used to probe the oxidation state and spin state of the [Fe4S4] cube in the reduced active form. No integer spin system is found and this is interpreted as supporting the Ni0 hypothesis. Additionally, spectra are presented that indicate the heterogeneous nature of the A-cluster is not caused by the occupancy of the proximal site.

Electronic and steric parameters for square planar NiN2S2 complexes as bidentate, S-donor ligands have been established. According to the (CO) stretching frequencies and associated computed Cotton-Kraihanzel force constants of (NiN2S2)W(CO)4 adducts, a ranking of donor abilities and a comparison with classical bidentate ligands are as follows: Ni(ema)= > { [NiN2S2]0 } > bipy phen > Ph2PCH2CH2PPh2 > Ph2PCH2PPh2. In addition, we have demonstrated that the NiN2S2 ligands are hemilabile as evidenced from CO addition to (NiN2S2)W(CO)4, which is in equilibrium with the resulting (NiN2S2)W(CO)5 species (Keq = 2.8 M-1, G = -1.4 kJ/mole at 50C). Complete NiN2S2 ligand displacement by CO-cleavage of the remaining W-S bond to form W(CO)6 was not observed, indicating that the remaining W-S bond is considerably strengthened upon ring-opening. Several new cluster compounds based on the NiN2S2 ligands bound to CuI, RhI, PdII and W0 are reported. Structural analysis of (NiN2S2)MLn complexes show a unique structural feature defined by the dihedral angle formed by the intersection of NiN2S2/WS2C2 planes; placing the NiN2S2 ligand in closer proximity to one side of the reactive metal center. This unique orientational feature of the NiN2S2 ligands in the series of bimetallic compounds contrasts with classical diphosphine or diimine ligands. The "hinge angle" ranges in value from 136 as in the (Ni-1*)W(CO)4 to 101 in the (Ni-1)Pd(CH3)(Cl) complexes. The rigidity of the SR hinge of the nickeldithiolate ligands suggests that they might be suitable for stereochemical and regioselective substrate addition to catalytically active metals such as RhI and PdII.. The structural as well as functional similarities of the acetyl CoA synthase enzyme (ACS) and a palladium-metal based industrial type catalyst led to the preparation of a [(Ni-1)Pd(CH3)]+ bimetallic complex. This complex facilitates CO and ethylene copolymerization to produce polyketone similar to conventional (diphosphine)Pd(X)2 catalysts. However, the diphosphine ligands produce more efficient catalysts as the electron-rich character of the NiN2S2 ligand favors the resting state of the catalyst, [(Ni-1)Pd(C(O)CH3)(CO)]+, over the reactive form (Ni-1)Pd(C(O)CH3)(2-C2H4)]+. An exploratory investigation with the Ni-Pd heterobimetallic showed that this complex also facilitated the C-S coupling reaction to form a thioester similar to the ACS enzyme.

Acetyl-CoA Synthase (ACS) katalysiert die Reaktion eines Methylkations, Kohlenstoffmonoxid und CoA zu Acetyl-CoA. Das aktive Zentrum von ACS ist ein Ni,Ni-[4Fe4S]-Cluster (A-cluster), in dem zwei Nickel-Ionen mit einem kubanen [4Fe4S]-Cluster verbrückt sind. An der Biosynthese von komplexen Metallclustern sind in der Regel mehrere akzessorische Proteine, auch Maturationsfaktoren genannt, beteiligt. Die Biosynthese des A-Clusters wurde bisher noch nicht genauer untersucht und es war nicht bekannt welche Proteine die Biosynthese des A-Clusters katalysieren. In dieser Arbeit wurde das Protein AcsF als Maturationsfaktor der ACS identifiziert und seine biochemischen und strukturellen Eigenschaften wurden charakterisiert. AcsF und apoACS aus Carboxydothermus hydrogenoformans bilden einen stabilen Komplex, der zwei Nickel-Ionen binden kann. ApoACS hingegen kann unter den gleichen Bedingungen im Durchschnitt nur weniger als ein Nickel-Ion binden. Der Ni-ACS-AcsF Komplex, an dem zwei Nickel-Ionen gebunden sind, ist katalytisch jedoch nicht aktiv. Erst durch Zugabe von Mg-ATP kann die inaktive Spezies in eine aktive Form überführt werden. AcsF-Proteine gehören zur gleichen Protein-Familie wie CooC-Proteine, die Maturationsfaktoren der Kohlenstoffmonoxid Dehydrogenase. Ein Sequenzähnlichkeitsnetzwerk konnte zeigen, dass AcsF- und CooC-Proteine jeweils eine eigene Untergruppe in dieser Familie bilden. Die AcsF-Proteine von C. hydrogenoformans und Archaeoglobus fulgidus wurden kristallisiert und deren Kristallstrukturen gelöst. Durch einen Vergleich der Strukturen von AcsF mit den Strukturen von zwei CooC-Proteinen konnte aufgedeckt werden, dass die größten strukturellen Unterschiede zwischen AcsF- und CooC-Proteinen zwischem dem Switch I Motif und dem CXC Motif zu finden sind. / Acetyl-CoA synthase (ACS) catalyzes the reaction of a methyl cation, carbon monoxide and CoA to acetyl-CoA. The active site of ACS is a Ni,Ni-[4Fe4S] cluster (A-cluster), in which two nickel ions are bridged to a cubane-type [4Fe4S] cluster. Usually, several accessory proteins are involved in the biosynthesis of such complex metal clusters. However, the biosynthesis of the A-cluster had not yet been investigated and it was not known which accessory proteins take part in its assembly. In this work, the protein AcsF was identified as a maturation factor of ACS, and its biochemical and structural properties were characterized. AcsF and apoACS from Carboxydothermus hydrogenoformans form a stabile complex, that can bind two nickel ions. ApoACS alone, on the other hand, binds on average only less than one nickel ion under the same conditions. The Ni-ACS-AcsF complex, that contains two nickel ions, is not active, but the addition of Mg-ATP converts the inactive species into an active form. AcsF proteins belong to the same protein family as CooC proteins, the maturation factors of carbon monoxide dehydrogenase. A sequence similarity network showed that AcsF and CooC proteins each form their own subgroup within this family. The AcsF proteins from C. hydrogenoformans and Archaeobglobus fulgidus were crystallized and their crystal structures were solved. A comparison of the crystal structures of AcsF proteins with the structures of two CooC proteins revealed that the main structural differences between AcsF and CooC proteins can be found between the switch I motif and the CXC motif.

Reductive acetogenesis via the acetyl-CoA pathway is a hydrogenotrophic pathway that has the potential to reduce methanogenesis from ruminant livestock. However our understanding of the organisms capable of this transformation (acetogens) is hindered by a lack of specific molecular tools for this group. In the present thesis, a PCR primer set specific for a wide range of acetogens was developed, targeting the acetyl-CoA synthase (ACS) gene which is unique to the acetyl-CoA pathway. ACS was found to be useful marker for potential acetogens and ACS sequences could be used to infer family-level phylogeny for many acetogens. ACS gene specific primers were used in combination with existing molecular tools targeting the gene encoding formyltetrahydrofolate synthetase (FTHFS, present in the acetyl-CoA pathway but not unique to it) and 16S rRNA genes, as well as cultivation techniques, to investigate acetogen diversity in the rumen and two analogous gut systems where microbial hydrogenotrophy differs: the forestomach of a native Australian marsupial, the tammar wallaby Macropus eugenii; and the developing rumen of young lambs. Novel potential acetogens present naturally in the rumen of pasture fed and grain fed cattle affiliated with the Ruminococcaceae/Blautia group and distantly with the Lachnospiraceae. A large diversity of potential acetogens with functional genes affiliating broadly between the Lachnospiraceae and Clostridiaceae though without a close sequence from a cultured relative were also detected. Rumen acetogen enrichment cultures revealed the presence of a known acetogen, Eubacterium limosum, in grain fed cattle, as well as novel acetogens affiliating with the Lachnospiraceae and Ruminococcaceae/Blautia group. The novel potential acetogen population detected in this study may represent an important hydrogenotrophic group in the rumen that we understand very little about and that requires further investigation. The tammar wallaby, which exhibits foregut fermentation analogous to that of the rumen but resulting in lower methane emissions, housed a different acetogen population to that of the bovine rumen (LIBSHUFF, p <0.0001) though novel potential acetogens in the tammar wallaby forestomach affiliated broadly in the same family groups (Blautia group, Lachnospiraceae and between Lachnospiraceae and Clostridiaceae without a close cultured isolate). Acetogen enrichment cultures from the tammar wallaby forestomach facilitated isolation of a novel acetogen, which was closely related to potent reductive acetogens from kangaroos. The differences between the acetogen population of the tammar wallaby forestomach and the bovine rumen may be a factor in explaining lower methane emissions and methanogen numbers in tammar wallabies relative to ruminants. Using a gnotobiotically reared lamb model, the unique acetogen population present in the developing rumen was identified and it’s response to methanogen colonisation examined. The acetogen E. limosum and potential acetogen Ruminococcus obeum were identified as well as a small diversity of novel potential acetogens affiliating with the Blautia group and the Lachnospiraceae. A small but diverse population of naturally resident methanogens were also identified in gnotobiotically reared lambs that had been isolated at 17 hours of age. After inoculation with Methanobrevibacter sp. 87.7, methanogen numbers in gnotobiotically reared lambs significantly increased but acetogen diversity was not altered, indicating that this population is resilient to methanogen colonisation to some degree. The potential acetogen population in gnotobiotically reared lambs was significantly different (LIBSHUFF, p < 0.0001) to that in conventionally reared sheep, which indicates that factors other than methanogen establishment alone, probably relating to other microbes and associated hydrogen concentrations in the rumen, affect acetogens during rumen development.

Zahlreiche strikt anaerob lebende Mikroorganismen, darunter acetogene Bakterien, Sulfatreduzierer und methanogene Archaeen, nutzen den reduktiven Acetyl-CoA-Weg zur autotrophen Kohlenstoff-Fixierung oder Energiegewinnung. Die letzten Schritte der Acetyl-CoA-Bildung beruhen hierbei auf dem Zusammenspiel dreier Proteine, dem Corrinoid-Eisen/Schwefel-Protein (CoFeSP), der Methyltetrahydrofolat:CoFeSP-Methyltransferase (MeTr) und dem Acetyl-CoA-Synthase/CO-Dehydrogenase-Komplex (ACS/CODH). In der vorliegenden Arbeit wurde die Substratbindung an MeTr durch thermodynamische und kinetische Messungen untersucht. MeTHF bindet stärker an das Enzym als das demethylierte Produkt Tetrahydrofolat (THF) und scheint dabei einem einstufigen Bindungsmodell zu folgen. Das Substrat wird bei der Bindung an MeTr protoniert, wobei Asn200 eine protonierte H-N5(+)-CH3-Position des MeTHF durch eine alternative Konformation stabilisieren könnte. Asp44 und Asp76 bilden eine funktionelle Dyade bei der Substratbindung, kommen als Protondonoren zur Substrataktivierung jedoch nicht in Frage. Die Kristallstruktur von CoFeSP wurde erstmals vollständig mit der flexiblen N-terminalen [4Fe4S]-Cluster-Bindedomäne bestimmt. Die für die Cobalamin-Bindedomäne erwarteten Konformationsänderungen wurden anhand der Interaktion mit dem reduktiven Aktivator von CoFeSP (RACo) analysiert. Durch Förster-Resonanzenergietransfer wurde eine Annäherung der ortsspezifisch markierten CoFeSP-Positionen beobachtet und anhand des Fluoreszenzsignals die Kinetik der Komplexbildung mit RACo bestimmt. Durch gepulste Elektronendoppelresonanz konnte ebenfalls eine Abstandsänderung nachgewiesen werden. ACS wurde als apo-Enzym gereinigt und durch NiCl2-Rekonstitution in die aktive Form überführt. Durch die Kristallisation der C-terminalen ACS-Domäne wurden hochaufgelöste Strukturen erzeugt, welche eine Diskussion der strukturellen Details des aktiven Zentrums ermöglichen. / Several anaerobic microorganisms, including acetogenic bacteria, sulfate-reducing bacteria and methanogenic archaea operate the reductive acetyl-CoA pathway for autotrophic carbon fixation or to gain energy. The last steps of acetyl-CoA formation rely on three enzymes, the corrinoid-iron/sulfur-protein (CoFeSP), the methyltetrahydrofolate:CoFeSP methyltransferase (MeTr) and the acetyl-CoA synthase/CO dehydrogenase complex (ACS/CODH). Substrate binding to MeTr was investigated by thermodynamic and kinetic meassurements. MeTHF binds slightly stronger than the demethylated product tetrahydrofolate (THF), likely following a simple one-step-binding mechanism. Substrate binding to MeTr is coupled to proton uptake. A H-N5(+)-CH3-transition state of MeTHF could be stabilized by an alternative conformation of Asn200. Asp44 and Asp76 form a functional dyade in substrate binding but can be excluded as proton donors for substrate activation. The crystal structure of CoFeSP was solved completely, including the previously disordered N-terminal [4Fe4S]-cluster binding domain. The expected conformational change of the corrinoid binding domain was characterized by analyzing the interaction between CoFeSP and its reductive activator (RACo). An approach of the labeled CoFeSP positions in the CoFeSP:RACo complex was observed by Förster resonance energy transfer. Based on the corresponding fluorescence signal, the kinetics of complex formation were meassured in solution. Pulsed electron double resonance also showed that the labeled positions approach upon complex formation. Full-length ACS was purified in the apo state. A reconstitution of the A-cluster with NiCl2 resulted in active enzyme. Different crystal structures of the isolated C-terminal domain of ACS were solved at high resolution. Therefore, structural details of the active site could be discussed.

No description available.