Entwicklung eines experimentellen Systems zur Untersuchung der subzellulärenLokalisierung der Alpha-Methylacyl-CoA-Racemase (AMACR) (Methode der retroviralen Transfektion von transformierten, embryonalen Mausfibroblasten) / Development of a experimental system for the investigation of the subcellular localisation of alpha-methylacyl-CoA racemase (amacr) (retroviral transfection of mouse fibroblasts)

Os genes de Prolina racemase (PRACs) são enzimas intracelulares ou secretadas de T. cruzi (TcPRAC); essas enzimas estão envolvidas no metabolismo, diferenciação e virulência. Os genes PRAC foram identificados e caracterizados molecularmente em isolados representantes de toda a diversidade interespecífica de T. cruzi, T. cruzi marinkellei, T. dionisii, T. erneyi, T. rangeli, T. conorhini e T. lewisi. Além dessas espécies de tripanossomas restritas a mamíferos; homólogos de PRAC foram encontrados em tripanossomas de cobra (T. serpentis), crocodilo (T. grayi) e anuro (T. sp. 339). Análises filogenéticas e de sintenia entre homólogos de PRAC suportaram uma historia evolutiva totalmente congruente com as relações evolutivas previamente descritas dentro do gênero Trypanosoma. / Proline racemaces (PRACs) are intracellular or secreted enzymes of Trypanosoma cruzi (TcPRAC), implicated in metabolism, differentiation, virulence and the induction of nonspecific polyclonal B-lymphocyte in the host. We identified and molecularly characterized PRAC genes from isolates representing all intra-specific diversity (TcI-TcVI and Tcbat), T. cruzi marinkellei, T. dionisii, T. erneyi, T. rangeli (isolates of lineages A-E), T. conorhini, and T. lewisi. In addition to these trypanosome species restricted to mammals, PRAC homologs were found in trypanosomes from snake (T. serpentis), crocodile (T. grayi) and anuran (T. sp 339). Phylogenetic and synteny analysis of PRAC homologs supported an evolutionary history totally congruent with the evolutionary relationships within the genus Trypanosoma.

Os genes de Prolina racemase (PRACs) são enzimas intracelulares ou secretadas de T. cruzi (TcPRAC); essas enzimas estão envolvidas no metabolismo, diferenciação e virulência. Os genes PRAC foram identificados e caracterizados molecularmente em isolados representantes de toda a diversidade interespecífica de T. cruzi, T. cruzi marinkellei, T. dionisii, T. erneyi, T. rangeli, T. conorhini e T. lewisi. Além dessas espécies de tripanossomas restritas a mamíferos; homólogos de PRAC foram encontrados em tripanossomas de cobra (T. serpentis), crocodilo (T. grayi) e anuro (T. sp. 339). Análises filogenéticas e de sintenia entre homólogos de PRAC suportaram uma historia evolutiva totalmente congruente com as relações evolutivas previamente descritas dentro do gênero Trypanosoma. / Proline racemaces (PRACs) are intracellular or secreted enzymes of Trypanosoma cruzi (TcPRAC), implicated in metabolism, differentiation, virulence and the induction of nonspecific polyclonal B-lymphocyte in the host. We identified and molecularly characterized PRAC genes from isolates representing all intra-specific diversity (TcI-TcVI and Tcbat), T. cruzi marinkellei, T. dionisii, T. erneyi, T. rangeli (isolates of lineages A-E), T. conorhini, and T. lewisi. In addition to these trypanosome species restricted to mammals, PRAC homologs were found in trypanosomes from snake (T. serpentis), crocodile (T. grayi) and anuran (T. sp 339). Phylogenetic and synteny analysis of PRAC homologs supported an evolutionary history totally congruent with the evolutionary relationships within the genus Trypanosoma.

Abstract Enzymes catalyze chemical changes in biological systems. Therefore, to understand the chemistry of living systems, it is important to understand the enzyme structure and the chemistry of the enzyme's functional groups which are involved in catalysis. In this study, structure and function relationships of two enzymes, (1) α-methylacyl-CoA racemase from Mycobacterium tuberculosis (MCR) and (2) argininosuccinate lyase from Escherichia coli (eASL) have been studied using X-ray crystallography. The main focus of this study has been understanding the structure-function relationship of MCR. The eASL has been crystallized from a highly concentrated sample of purified recombinant α-methylacyl-CoA racemase in which it occurred as a minor impurity. The structure of eASL has been solved using molecular replacement at 2.44 Å resolution. The enzyme is a tetramer, but in this crystal form there is a dimer in the asymmetric unit. Each active site is constructed from loops of three different subunits. One of these catalytic loops, near residue Ser277 and Ser278, has been disordered in the previous structures of active lyases, but is very well ordered in this structure in one of the subunits due to the presence of two phosphate ions in the respective active site cavity. The positions of these phosphate ions indicate a plausible mode of binding of the succinate moiety of the substrate in the competent catalytic complex and therefore this structure has provided new information on the reaction mechanism of this class of enzymes. α-Methylacyl-CoA racemase (Amacr) catalyzes the racemization of α-methyl-branched CoA esters. An Amacr homologue from the eubacteria Mycobacterium tuberculosis, referred to as MCR, was taken as a model protein. MCR was purified, crystallized and the structure of unliganded protein was determined at 1.8 Å resolution using the MIRAS procedure. The structure shows that the enzyme is an interlocked dimer. To understand the reaction mechanism and the mode of substrate binding, several crystallographic binding studies were done using both wild type MCR and mutant H126A MCR crystals. In particular, the structures of the wild type MCR-complexes with (R, S)-ibuprofenoyl-CoA (1.85 Å), (R)-2-methylmyristoyl-CoA (1.6 Å) and (S)-2-methylmyristoyl-CoA (1.7 Å) were important in this respect. These crystal structures show that Asp156 and His126 are the two catalytic residues which are involved in proton donation and abstraction, respectively; when the (S)-enantiomeric substrate is bound in the active site and vice versa when the (R)-enantiomeric substrate is bound. The tight geometry of the active site also shows that His126 and Asp156 are involved in stabilizing the transition state. These crystal structures show that in the active site of MCR, there is one binding pocket for the CoA part and there are two different binding pockets (R-pocket and S-pocket) connected by a hydrophobic methionine rich surface for binding the fatty acyl part of the substrate. After substrate binding, proton abstraction takes place which produces a planar intermediate. Then, donation of a proton to the other side of the planar intermediate changes the configuration at the chiral center. During the stereochemical interconversion of the two enantiomers, the acyl group moves between R-pocket and S-pocket by sliding over the hydrophobic surface connecting these two pockets.

Im Katabolismus methylverzweigter Fettsäuren spielt die alpha-Methylacyl-CoA-Racemase eine wichtige Rolle, indem sie die (R)- und (S)-Isomere von alpha-methylverzweigten Fettsäuren als Coenzym A Thioester racemisiert. Methylverzweigte Fettsäuren entstehen beim Abbau von Isoprenoiden und werden darüber hinaus auch von vielen Organismen, wie z.B. Mycobakterien, synthetisiert. Die Hauptaufgabe der Racemase ist aber vermutlich in der Biosynthese von Gallensäuren zu sehen. Das Ziel der vorliegenden Arbeit war es, die alpha-Methylacyl-CoA-Racemase aus humanem Gewebe zu reinigen und zu charakterisieren sowie ihre physiologische Rolle im Katabolismus verzweigtkettiger Fettsäuren und der Gallensäurebiosynthese zu untersuchen. Die alpha-Methylacyl-CoA-Racemase wurde aus humanem Gewebe zur Homogenität gereinigt, umfassend biochemisch charakterisiert und zur genauen molekularbiologischen Analyse in E.coli kloniert. Die Aktivität der Racemase wurde anhand der [³H]H2O-Freisetzung aus [alpha-³H]-a-Methylacyl-CoAs bestimmt. Die humane Racemase ist in der aktiven Form ein monomeres Protein und besteht aus 382 Aminosäuren. Als Substrate akzeptiert das Enzym ein breites Spektrum von alpha-Methylacyl-CoAs. Neben den Coenzym A-Thioestern alpha-methylverzweigter Fettsäuren, wie Pristansäure, werden auch CoA-Ester von Steroidderivaten, z.B. des Gallensäureintermediats Trihydroxycoprostansäure, und aromatischen Phenylpropionsäuren, wie dem Analgetikum Ibuprofen, umgesetzt. Freie Fettsäuren, geradkettige oder beta-methylverzweigte Acyl-CoAs werden nicht racemisiert. Die alpha-Methylacyl-CoA-Racemase ist im Menschen zu ca. 80 Prozent auf die Peroxisomen und ca. 20 Prozent auf die Mitochondrien verteilt, wobei entsprechende peroxisomale (PTS 1) und mitochondriale (MTS) Transportsignale die Lokalisation bestimmen. Die vollständige cDNA-Sequenz der humanen a-Methylacyl-CoA-Racemase hat eine Gesamtlänge von 2039 Basenpaaren mit einem offenen Leseraster von 89 - 1237 bp. Das Startcodon ATG ist in eine klassische Kozak-Sequenz zum Translationsstart eingebettet. Die Protein endet am C-Terminus mit dem Sequenzmotiv –KASL, das dem peroxisomalen Transportsignal (PTS I) einiger Säugetierkatalasen entspricht. Aufgrund alternativer Polyadenylierung sind in allen untersuchten menschlichen Geweben Transkripte von 1,6 kb bzw. 2,0 kb zu finden. Es liegt keine gewebsabhängige Polyadenylierung vor, die Racemase wird aber gewebsspezifisch exprimiert (besonders stark in Leber und Niere). Das humane Racemasegen liegt auf dem kurzen Arm des Chromosoms 5 nahe am Centromer (5p1.3), im Intervall von D5S651 (46,6 cM) und D5S634 (59.9 cM). / Racemization is an essential step for bile acid synthesis and it is important for degradation of alpha-methyl branched-chain fatty acids. The (R)- and (S)-isomers of alpha-methyl-branched chain fatty acids were shown to be interconverted as coenzyme A thioesters by an alpha-methylacyl-CoA racemase. Various branched-chain fatty acids arise in the catabolism of isoprenoids and are also synthesized by a variety of organisms, particularly mycobacteria. The aim of this work was to purify and to characterize the racemase from human tissue and to analyse the physiological role in the degradation of branched-chain fatty acids and the bile acid synthesis. The alpha-methylacyl-CoA racemase was purified from human liver to apparent homogeneity. The enzyme was exhaustively characterized by methods of biochemistry and protein chemistry. The cDNA coding for human racemase was cloned in E. coli and sequenced. A radiometric assay with 2-methyl[2-³H]acyl-CoAs as substrates was used routinely for monitoring purification procedure. The active form of the enzyme is a monomeric protein comprising 382 amino acids. The enzyme accepts a wide range of alpha-methylacyl-CoAs, including pristanoyl-CoA, trihydroxycoprostanoyl-CoA (an intermediate in bile acid synthesis) as substrates. Also arylpropionyl-CoAs such as the anti-inflammatory drug ibuprofen are accepted, but neither free fatty acids, beta-methyl-branched nor linear-chain acyl-CoAs. In human tissues 80 - 90 Prozent of the racemase activity is found in peroxisomes and 10 - 20 Prozent in mitochondria. Degradation of branched chain fatty acids is located in both compartments, so the enzyme has to be distributed between peroxisomes and mitochondria. No evidence was found for the existence of isoenzymes or different transcription products. It appears that only one mRNA is transcribed from one gene and that also only one protein is synthesized. The different recognition of peroxisomal (PTS 1) and mitochondrial targeting signals (MTS) may determine the subcellular distribution. The complete cDNA sequence has an overall length of 2039 base pairs, with a open reading frame between 89 - 1237 bp. The ATG start codon is embedded in a classical Kozak sequence for translation start. The C-Terminus of the protein is –KASL, which is very similar to the peroxisomal targeting signals (PTS 1) of many mammalian catalases. In all human tissues analysed in this work two different transcripts of racemase with sizes of 1,6 kb and 2,0 kb have been found and show alternate polyadenylation. Polyadenylation of racemase is not tissue-dependent but its expression is tissue-specific (strong activity is found in liver and kidney). The human racemase gene is localized on the short arm of chromosome 5, near the centromer (region 5p1.3) and between the markers D5S651 (46,6 cM) and D5S634 (59.9 cM).

Orientador: Sebastião Roberto Taboga / Tese (doutorado) - Universidade Estadual de Campinas, Instituto de Biologia / Made available in DSpace on 2018-08-09T15:30:54Z (GMT). No. of bitstreams: 1 Souza_CristianiZanetoniIsraelde_D.pdf: 8114014 bytes, checksum: 02df40337836deefc11fdc588dbdccb0 (MD5) Previous issue date: 2007 / Resumo: O câncer de próstata atualmente é o tumor mais comum em homens com mais de 50 anos de idade. Entre os fatores de risco que contribuem para o aumento dessa doença destaca-se o envelhecimento, período em que ocorrem acentuados desequiliorios hormonais. Há muitas dificuldades na obtenção de material humano para estudos do desenvolvimento de tumores prostáticos, pois esta questão esbarra na ética médica. Vários grupos de pesquisa vêm tentando desenvolver, caracterizar e validar modelos roedores para análise do câncer de próstata. Modelos autóctones, nos quais são estudadas as lesões prostáticas espontâneas, têm desempenhado papel relevante nas pesquisas dessa neoplasia. Além disso, inúmeras investigações têm sido feitas sobre a indução experimental de tumores na próstata de roedores de laboratório: ratos, camundongos e cobaias. Em uma primeira etapa deste trabalho, foram realizadas análises morfológicas (estruturais e ultra-estruturais), quantitativas e funcionais dos componentes celulares dos compartimentos epitelial e estromal do lobo ventral da próstata do gerbilo" velho (Meliones unguiculatus). A morfologia prostática nesses animais revelou que em uma mesma glândula puderam ser observadas regiões funcionais com epitélio secretor normal e outras áreas com alterações histopatológicas atípicas. Nesses, o declínio de testosterona esteve associado a alterações proliferativas na glândula, levando ao entendimento da importância desse andrógeno na homeostase e funcionalidade prostática. Devido a essas constatações, em uma segunda etapa, foi feita a indução experimental de tumores na próstata do gerbilo adulto, após tratamento conjugado de N-metil-N-rutrosouréia com propionato de testosterona. Depois de estabelecidos os tumores, as próstatas foram processadas para estudos rustológico, imunocitoquímico e ultra-estrutural. Os resultados mostraram que em gerbilos o surgimento de lesões prostáticas ocorreu em períodos experimentais de até 9 meses e que tanto o cancerígeno como a testosterona, associados ou não, foram indutores de neoplasias. Sugere-se que as células atípicas possam apresentar potencial invasivo pela observação da ruptura da membrana basal pelos métodos de imunocitoquímica para laminina e análise ultra-estrutural. Detectou-se também no gerbilo a expressão da proteína citoplasmática Alfa-Metilacil-CoARacemase (PS04S) em células prostáticas neoplásicas, bem como é observado no câncer prostático do homem. Assim, este trabalho é pioneiro na demonstração da expressão de P504S em roedores. A partir dos resultados apresentados constatou-se que o gerbilo é um modelo animal para estudos de carcinogênese química prostática, que somados aos dados da literatura, levarão ao melhor entendimento da biologia de lesões da próstata / Abstract: The prostate cancer is the most common tumor that attacks men from the 50's decade. Among the risk factors that contribute to this disease's increase stand out the aging process, when hormonal unbalances happen frequendy. Developmental studies of prostatic tumors have been complicated because of difficult in obtaining human material, once this question lies on medical ethics. Researchers group have had tried to develop, characterize and validate some rodent models to analyze the prostate cancer. Autoctone models used to study spontaneous prostatic lesions have performed important role to these kind of neoplasia. ln addition, lots of innstigations have been done about experimental induction of prostatic tumors in rats, mice and guinea pig. ln a first phase of the present work, it was realized in the ventral lobe of old gerbil's prostate veriones unguiculatllm) structural and ultra-structural morphological, quantitative and functional analyzes of the cellular compounds of epithelial and stromal compartments. The prostatic features of theses animaIs revealed that in a same gland could be noted functional regions containing normal secretof)' epithelium and regions completely altered, showing histopathological lesions. A testosterone concentration decrease associated to these prolifera tive sites confmns the importam role of this androgen to the prostatic homeostasis. Because of these data, in the second phase of this. work, it was done a prostatic tumors experimental induction in the adult gerbil, after conjugate treatment of N-metil-N-nitrosourea with testosterone propionate. Once the tumors were established, prostate fragments were processed for histological, immunocytocl)emical and ultra-structural studies. The results showed that in gerbils, the emergence of prostatic lesions happened in experimental periods of until 9 months and both the carcinogen and testosterone, associated or not, was able to induce these adenocarcinomas. The invase potencial of anomalus cells could be proved by ultra-structural analyz~s and by the immunocytochemical test for laminima, noted in the basal membrane disruption. On the other hand, it was observed that gerbil is one of the pioneers in expression of the citoplasmatic protein Alfa-lvletilacilCoARacemase (P504S), which is found in the neoplastic cells, likely in prostatic human cancer. Concluding, this study is pioneer in the demonstration of the P504S expression in rodents. Based on these presented data, it was verified that gerbil is a good experimental model to chemical carcinogenesis research of the prostate, which taken together with previous literature will give a better and profounder understanding of prostatic lesions / Doutorado / Biologia Celular / Doutor em Biologia Celular e Estrutural

D-serine metabolism is implicated in schizophrenia pathophysiology. This is based on reduced D-serine levels in the disorder, its ameliorative effects therapeutically and the potential genetic contributions of its metabolic enzymes, D-amino acid oxidase (DAO) and serine racemase (SRR). D-serine is a gliotransmitter and the N-methyl D-aspartate receptor (NMDAR) co-agonist. Thus, altered D-serine metabolism may contribute to NMDAR hypofunction in schizophrenia. The research in this thesis was designed to investigate D-serine metabolic enzymes further through studying their distribution, their expression in schizophrenia and their effect on NMDARs. The regional and cellular distribution of DAO and SRR in rodent and human brain were investigated using immunohistochemistry. Both enzymes were found within frontal cortex, hippocampus and cerebellum. In rodent frontal cortex, SRR expression was neuronal suggesting D-serine is not always glia-derived. In the human this was not the case, highlighting possible species differences. DAO in the rodent and human cortex was robustly detected, challenging previous views. In rodent cerebellum, both enzymes were neuronal and glial and in human, predominantly glial. In schizophrenia, DAO and SRR expression were investigated using western blotting and real-time PCR. DAO expression was elevated in the cerebellum in the disorder, without an accompanying change in SRR. In the dorso-lateral prefrontal cortex (DPFC), DAO and SRR mRNAs were unchanged in schizophrenia but SRR protein was significantly increased. The elevation in DPFC SRR protein was not replicated however in a second study. To investigate the effects of D-serine metabolic enzymes on NMDARs, an in vitro model of altered SRR expression was developed, but its use hindered through technical complications. The data detailed demonstrate new findings of DAO and SRR’s distributions in the brain and highlight novel potential roles for these enzymes. In addition, the data provide some paradoxical findings including DAO’s cortical expression. The investigations in schizophrenia lend to robust demonstrations of DAO’s elevated cerebellar expression in the disorder. However, its roles therein and that of DAO and SRR on NMDAR function remain unclear.

Proteins are dynamic molecules capable of performing complex biological functions necessary for life. The impact of protein dynamics in the development of medicines is often understated. Science is only now beginning to unravel the numerous consequences of protein flexibility on structure and function. This thesis will encompass two case studies in developing small molecule inhibitors targeting flexible enzymes, and provide a thorough evaluation of their inhibitory mechanisms of action. The first case study focuses on caspases, a family of cysteine proteases responsible for executing the final steps of apoptosis. Consequently, they have been the subject of intense research due to the critical role they play in the pathogenesis of various cardiovascular and neurodegenerative diseases. A fragment-based screening campaign against human caspase-7 resulted in the identification of a novel series of allosteric inhibitors, which were characterized by numerous biophysical methods, including an X-ray co-crystal structure of an inhibitory fragment with caspase-7. The fragments described herein appear to have a significant impact on the substrate binding loop dynamics and the orientation of the catalytic Cys-His dyad, which appears to be the origin of their inhibition. This screening effort serves the dual purpose of laying the foundation for future medicinal chemistry efforts targeting caspase proteins, and for probing the allosteric regulation of this interesting class of hydrolases. The second case study focuses on glutamate racemase, another dynamic enzyme responsible for the stereoinversion of glutamate, providing the essential function of D-glutamate production for the crosslinking of peptidoglycan in all bacteria. Herein, I present a series of covalent inhibitors of an antimicrobial drug target, glutamate racemase. The application of covalent inhibitors has experienced a renaissance within drug discovery programs in the last decade. To leverage the superior potency and drug target residence time of covalent inhibitors, there have been extensive efforts to develop highly specific covalent modifications to reduce off-target liabilities. A combination of enzyme kinetics, mass spectrometry, and surface-plasmon resonance experiments details a highly specific 1,4-conjugate addition of a small molecule inhibitor with the catalytic Cys74 of glutamate racemase. Molecular dynamics simulations and quantum mechanics-molecular mechanics geometry optimizations reveal, with unprecedented detail, the chemistry of the conjugate addition. Two compounds from this series of inhibitors display antimicrobial potency comparable to β-lactam antibiotics, with significant activity against methicillin-resistant S. aureus strains. This study elucidates a detailed chemical rationale for covalent inhibition and provides a platform for the development of antimicrobials with a novel mechanism of action.

Flexible enzymes are notoriously a bane to structure-based drug design and discovery efforts. This is because no single structure can accurately capture the vast array of conformations that exist in solution and many are subject to ligand-associated structural changes that are difficult to predict. Glutamate racemase (GR) – an antibiotic drug discovery target involved in cell wall biosynthesis – is one such enzyme that has eluded basic structure-based drug design and discovery efforts due to these flexibility issues. In this study, our focus is on overcoming the impediment of unpredictable ligand-associated structural changes in GR drug discovery campaigns. The flexibility of the GR active site is such that it is capable of accommodating ligands with very different structures. Though these ligands may bind to the same pocket, they may associate with quite dissimilar conformations where some are more favorable for complexation than others. Knowledge of these changes is invaluable in guiding drug discovery efforts, indicating which compounds selectively associate with more favorable conformations and are therefore better suited for optimization and providing starting structures to guide structure-based drug design optimization efforts. In this study, we develop a mutant GR possessing a genetically encoded non-natural fluorescent amino acid in a region remote from the active site whose movement has been previously observed to correlate with active site changes. With this mutant GR, we observe a differential fluorescence pattern upon binding of two structurally distinct competitive inhibitors known to associate with unique GR conformations – one to a favorable conformation with a smaller, less solvated active site and the other to an unfavorable conformation with a larger, more solvated active site. A concomitant computational study ascribes the source of this differential fluorescence pattern to ligand-associated conformational changes resulting in changes to the local environment of the fluorescent residue. Therefore, this mutant permits the elucidation of valuable structural information with relative ease by simply monitoring the fluorescence pattern resulting from ligand binding, which indicates whether the ligand has bound to a favorable or unfavorable conformation and offers insight into the general structure of this conformation.

Abstract α-Methylacyl-CoA racemase (Amacr) is an enzyme at the merging point of two important pathways of lipid metabolism: elimination of methyl-branched fatty acids and synthesis of bile acids. Amacr is regarded as obligatory for these processes. Patients with Amacr-deficiency suffer from adult onset sensory motor neuropathy and/or severe neonatal cholestasis with coagulopathy and fat-soluble vitamin malabsorption. Amacr is also linked to cancer and so far has been proposed as a new marker for diagnosis of at least prostate and colon cancers. Common sources of phytol derived branched-chain fatty acids for man are ruminant fats, meat and dairy products. The bile acid synthesis is the main pathway for cholesterol catabolism. Amacr is considered to be a member of family III of the CoA transferases (L-carnitine dehydratase - bile acid inducible protein F (CaiB-BaiF) family) and localized to two subcellular compartments, mitochondria and peroxisomes. In this work the mouse gene encoding Amacr was characterized, the gene was inactivated and mutational and structural studies were used to determine the loop and the active site structure of the enzyme. It was shown that mouse Amacr which locates both to mitochondria and peroxisomes, is an identical product of a single gene, which is located at chromosome 15, region 15B1. Neither alternative replication, splicing, or any post-translational modifications of the enzyme occur. The mouse model for Amacr-deficiency indicated a role of Amacr in detoxification of methyl-branched fatty acids, and suggested that a diet free from these phytol metabolites may function as a treatment for the deficiency. Furthermore, major changes were observed in the bile acid pool of the knock-out mice compared to wild type mice. However, the study suggests that there is an Amacr-independent pathway for synthesis of bile acids albeit of low capacity, which provides a way for Amacr-deficient individuals to survive. The mutational and structural studies confirmed Amacr as a member of family III of the CoA transferases. Furthermore, according to comparisons of the structural data of Amacr and other members of the family (FRC, YfdW), the superfamily can be divided into two subgroups, racemases and transferases. Proteins in the subfamilies share the CoA-binding mode, but the substrate specificities as well as the catalysed reaction differ greatly.